Nothing
tests/testthat/_snaps/sim_linelist.md
In simulist: Simulate Disease Outbreak Line List and Contacts Data
sim_linelist works as expected with defaults
Code
sim_linelist()
Output
id case_name case_type sex age date_onset date_reporting
1 1 Lolette Phillips suspected f 59 2023-01-01 2023-01-01
2 2 James Jack suspected m 90 2023-01-01 2023-01-01
3 3 Chen Kantha confirmed m 4 2023-01-02 2023-01-02
4 5 Saleema al-Zaki probable f 29 2023-01-04 2023-01-04
5 6 David Ponzio confirmed m 14 2023-01-05 2023-01-05
6 7 Christopher Ward probable m 85 2023-01-06 2023-01-06
7 10 Laura Ilaoa confirmed f 25 2023-01-13 2023-01-13
8 11 Morgan Mason suspected f 34 2023-01-11 2023-01-11
9 12 Cornelius Turner confirmed m 89 2023-01-13 2023-01-13
10 14 Shaddaad el-Younes suspected m 63 2023-01-11 2023-01-11
11 18 Carlo Ceazar Corpuz confirmed m 74 2023-01-14 2023-01-14
12 19 Bishr al-Qasim confirmed m 34 2023-01-12 2023-01-12
13 22 Nichole Mcfarland confirmed f 29 2023-01-12 2023-01-12
14 24 Jubair el-Aly confirmed m 46 2023-01-13 2023-01-13
15 27 Hafsa al-Massoud probable f 24 2023-01-14 2023-01-14
16 29 Trever Manis confirmed m 41 2023-01-21 2023-01-21
17 30 Maiya Vathanavarin suspected f 72 2023-01-19 2023-01-19
18 31 Ghaamid el-Zafar probable m 6 2023-01-20 2023-01-20
19 33 Kelly Runningbear-Paul confirmed f 61 2023-01-14 2023-01-14
20 34 James Welter probable m 44 2023-01-14 2023-01-14
21 35 Austin Manheimer confirmed m 71 2023-01-27 2023-01-27
22 38 Orville Stadelbauer confirmed m 69 2023-01-23 2023-01-23
23 39 Jennifer Ouk probable f 61 2023-01-23 2023-01-23
24 41 Nafeesa al-Zaher confirmed f 64 2023-01-24 2023-01-24
25 44 Nawwaara el-Pasha probable f 61 2023-01-22 2023-01-22
26 45 Saleet el-Mohammed probable m 66 2023-01-22 2023-01-22
27 47 Christian Mendoza probable m 81 2023-01-28 2023-01-28
28 50 Eraina Mcgee confirmed f 53 2023-01-28 2023-01-28
29 51 Mia Floyd probable f 45 2023-01-29 2023-01-29
30 53 Collin Chavez confirmed m 42 2023-02-02 2023-02-02
31 54 Itzel Gonzales confirmed f 78 2023-02-03 2023-02-03
32 55 Alexis Caramillo confirmed f 35 2023-01-24 2023-01-24
33 56 Ronnie Scurlock suspected m 54 2023-01-26 2023-01-26
34 58 Shane Ahmad confirmed m 68 2023-01-25 2023-01-25
35 59 Ghaaliya al-Shaheed probable f 3 2023-01-23 2023-01-23
36 60 Exzinia Smith probable f 44 2023-01-29 2023-01-29
37 63 Rhiannon Freeland probable f 62 2023-01-31 2023-01-31
38 64 Deisha Beckner confirmed f 35 2023-01-29 2023-01-29
39 65 Nelly Reyez confirmed f 90 2023-02-03 2023-02-03
40 66 Nadheera el-Mohiuddin probable f 25 2023-02-01 2023-02-01
41 71 Caroline Vargas Pena probable f 46 2023-01-29 2023-01-29
42 73 Mathurin Curtis confirmed m 8 2023-02-01 2023-02-01
43 77 Kevin Shahi confirmed m 63 2023-01-30 2023-01-30
44 78 Diksha Reichal suspected f 54 2023-01-29 2023-01-29
45 80 Jazmine Sturgeon probable f 67 2023-02-03 2023-02-03
46 85 Sally Richardson probable f 37 2023-02-02 2023-02-02
47 88 Laraena Batson confirmed f 73 2023-01-30 2023-01-30
48 89 Monica Ye probable f 13 2023-02-02 2023-02-02
49 90 Kashauna Yorks probable f 72 2023-02-01 2023-02-01
50 93 Carmelita Montoya probable f 61 2023-02-04 2023-02-04
51 97 Aliyya el-Yassin probable f 22 2023-02-05 2023-02-05
52 98 Alicia Vue confirmed f 29 2023-02-04 2023-02-04
53 101 Rashele Williams confirmed f 17 2023-02-07 2023-02-07
54 108 Isabella Medina probable f 71 2023-02-14 2023-02-14
55 111 Samuel Goodfellow confirmed m 90 2023-02-09 2023-02-09
56 113 Bertha Mohar probable f 23 2023-02-12 2023-02-12
57 114 Mu,Aawiya al-Kaba confirmed m 35 2023-02-16 2023-02-16
58 116 Andrew Garcia confirmed m 62 2023-02-24 2023-02-24
59 119 Trevor Colligan confirmed m 57 2023-02-23 2023-02-23
60 120 Taaj el-Sarah suspected m 44 2023-02-18 2023-02-18
61 122 Savannah Cohen confirmed f 57 2023-03-02 2023-03-02
62 123 Nawfa el-Anwar suspected f 63 2023-03-08 2023-03-08
63 125 Ryan Zheng suspected m 46 2023-02-28 2023-02-28
64 126 Henry Reichman suspected m 66 2023-02-26 2023-02-26
65 130 Shannon Armbrust probable f 68 2023-03-07 2023-03-07
66 131 Orilea Diego probable f 12 2023-03-09 2023-03-09
67 133 Kloe Avila confirmed f 51 2023-03-18 2023-03-18
68 138 Sarah Griffith confirmed f 2 2023-03-10 2023-03-10
69 139 Kara Finken probable f 53 2023-03-09 2023-03-09
70 142 Raul Aguirre Molina probable m 76 2023-03-23 2023-03-23
71 143 Mikayla Smith confirmed f 82 2023-03-21 2023-03-21
72 145 Mansoor al-Siddique confirmed m 25 2023-03-15 2023-03-15
73 146 Nizaam al-Salame suspected m 76 2023-03-13 2023-03-13
74 147 Alexis Harding confirmed f 14 2023-03-13 2023-03-13
75 150 Unique Vigil confirmed f 76 2023-03-11 2023-03-11
76 153 Tanya Mcadoo confirmed f 78 2023-03-15 2023-03-15
77 154 Shawn Morgan confirmed m 75 2023-03-24 2023-03-24
78 155 Asysa Robinson confirmed f 76 2023-03-24 2023-03-24
79 157 Sakeena al-Abdoo suspected f 80 2023-03-18 2023-03-18
80 158 Richard Prum confirmed m 41 2023-03-18 2023-03-18
81 159 Shahla al-Jaffer confirmed f 78 2023-03-19 2023-03-19
82 163 Kailey Braden suspected f 28 2023-03-15 2023-03-15
83 164 Raadiya el-Chahine confirmed f 2 2023-03-21 2023-03-21
84 166 Janie Santa Cruz probable f 82 2023-03-26 2023-03-26
85 171 Alvaro Romero probable m 5 2023-03-22 2023-03-22
86 172 Lane Rodriguez confirmed m 1 2023-03-20 2023-03-20
87 173 Ka Lee confirmed m 44 2023-03-19 2023-03-19
88 174 Qaaid al-Shaker suspected m 76 2023-03-16 2023-03-16
89 175 Munsif al-Ozer suspected m 3 2023-03-29 2023-03-29
90 176 Sharon Watson probable f 15 2023-03-25 2023-03-25
91 177 Danielle Ouellette confirmed f 19 2023-03-26 2023-03-26
92 178 Abdur Rasheed al-Salahuddin confirmed m 76 2023-03-25 2023-03-25
93 182 Samuel Videtzky confirmed m 90 2023-03-27 2023-03-27
94 186 Shalise Peters-Maloy confirmed f 64 2023-04-03 2023-04-03
95 189 Jay Herman confirmed m 35 2023-03-29 2023-03-29
96 195 Manaara el-Saba confirmed f 84 2023-03-27 2023-03-27
97 196 Amelia Gallegos confirmed f 18 2023-03-30 2023-03-30
98 197 Brieannah Coles suspected f 79 2023-03-28 2023-03-28
99 199 Sarah Vu suspected f 49 2023-04-07 2023-04-07
100 200 Mason Powells probable m 56 2023-04-05 2023-04-05
101 201 Ashley Dotson confirmed f 76 2023-04-07 2023-04-07
102 202 Abdul Ghafoor al-Firman confirmed m 41 2023-04-03 2023-04-03
103 205 Vincent Arnick suspected m 29 2023-04-01 2023-04-01
104 209 Razeen al-Sala suspected m 39 2023-04-05 2023-04-05
105 210 Rusty Figueroa confirmed m 32 2023-04-01 2023-04-01
106 211 Emma Jones suspected f 9 2023-04-06 2023-04-06
107 213 Cam Tu Quilon confirmed f 39 2023-04-11 2023-04-11
108 214 Fisayo Wallace confirmed m 12 2023-04-17 2023-04-17
109 219 Alejandra Purdham confirmed f 52 2023-04-10 2023-04-10
110 221 Yahya el-Aslam confirmed m 22 2023-04-02 2023-04-02
111 224 Nabeel el-Karam probable m 68 2023-04-08 2023-04-08
112 226 Sandra Rodriquez confirmed f 57 2023-04-06 2023-04-06
113 229 Ameen al-Shakir confirmed m 8 2023-04-12 2023-04-12
114 230 Azmi el-Safar confirmed m 28 2023-04-12 2023-04-12
115 232 Laaiqa el-Azizi suspected f 2 2023-04-02 2023-04-02
116 233 Jose Lopez confirmed m 84 2023-04-09 2023-04-09
117 234 Mreenal Solberg confirmed f 52 2023-04-09 2023-04-09
118 235 Kevin Behr confirmed m 58 2023-04-12 2023-04-12
119 236 Khyleah Jones suspected f 29 2023-04-10 2023-04-10
120 238 Quinn Barrett confirmed m 30 2023-04-14 2023-04-14
121 240 Bryanna Medrano confirmed f 71 2023-04-15 2023-04-15
122 243 Marques Rice suspected m 43 2023-04-13 2023-04-13
123 245 Andrew Zaragoza-Madrid confirmed m 40 2023-04-15 2023-04-15
124 250 Julanne El-Amin suspected f 46 2023-04-16 2023-04-16
125 251 Jason Sowards suspected m 69 2023-04-11 2023-04-11
126 252 Yeeleng Tran suspected m 69 2023-04-20 2023-04-20
127 253 Isaac Reid probable m 38 2023-04-20 2023-04-20
128 254 Lawrence Williams probable m 28 2023-04-16 2023-04-16
129 255 Adrian Anaya confirmed m 82 2023-04-16 2023-04-16
130 258 Colette Torres confirmed f 19 2023-04-14 2023-04-14
131 261 Jose Luna confirmed m 46 2023-04-26 2023-04-26
132 262 Ummu Kulthoom al-Ghaffari confirmed f 71 2023-04-13 2023-04-13
133 264 Luna Vigil confirmed f 4 2023-04-25 2023-04-25
134 265 Jasmine Evans confirmed f 31 2023-04-25 2023-04-25
135 267 Javon Jenkins probable m 16 2023-04-20 2023-04-20
136 268 Clifton Charron confirmed m 53 2023-04-21 2023-04-21
137 277 Zachary Stuart confirmed m 14 2023-05-01 2023-05-01
138 278 Naseer el-Javed confirmed m 48 2023-04-28 2023-04-28
139 279 Alexis Stafford confirmed f 89 2023-04-25 2023-04-25
140 280 Razeen el-Azad suspected m 39 2023-04-26 2023-04-26
141 282 Jordan Marshall probable f 20 2023-04-21 2023-04-21
142 284 Marcus Erman probable m 6 2023-05-03 2023-05-03
143 285 Ismad al-Badour probable m 28 2023-05-05 2023-05-05
144 291 Firdaus el-Farha suspected f 42 2023-05-01 2023-05-01
145 292 Jane David confirmed f 71 2023-04-23 2023-04-23
146 293 Corina Morales probable f 9 2023-05-05 2023-05-05
147 296 Justin Delori suspected m 61 2023-05-06 2023-05-06
148 298 Janalen Nguyen confirmed f 53 2023-05-02 2023-05-02
149 301 Naseera al-Arif confirmed f 76 2023-04-23 2023-04-23
150 302 Andrew Sun confirmed m 69 2023-04-26 2023-04-26
151 304 Ty Rains confirmed m 50 2023-05-07 2023-05-07
152 307 Javier Valdez probable m 7 2023-05-09 2023-05-09
153 310 Kyana Ludwig confirmed f 45 2023-04-24 2023-04-24
154 311 Jessie Berry confirmed f 83 2023-04-25 2023-04-25
155 313 Jazmyn Guyton confirmed f 41 2023-04-27 2023-04-27
156 316 Gia Garcia confirmed f 88 2023-05-10 2023-05-10
157 320 John Trujillo probable m 79 2023-05-01 2023-05-01
158 326 Haley Hamlin probable f 82 2023-05-08 2023-05-08
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-09 died 2023-01-13 <NA> <NA>
2 <NA> recovered <NA> 2022-12-29 2023-01-03
3 <NA> recovered <NA> 2022-12-28 2023-01-01
4 <NA> recovered <NA> 2022-12-28 2023-01-04
5 2023-01-09 died 2023-01-23 2022-12-31 2023-01-04
6 2023-01-08 recovered <NA> 2022-12-31 2023-01-06
7 <NA> recovered <NA> 2023-01-02 2023-01-07
8 2023-01-24 died 2023-01-27 2023-01-03 2023-01-07
9 <NA> recovered <NA> 2023-01-03 2023-01-11
10 <NA> recovered <NA> 2023-01-04 2023-01-09
11 <NA> recovered <NA> 2023-01-09 2023-01-17
12 <NA> recovered <NA> 2023-01-07 2023-01-14
13 <NA> recovered <NA> 2023-01-07 2023-01-17
14 <NA> recovered <NA> 2023-01-08 2023-01-15
15 2023-01-19 died 2023-01-27 2023-01-09 2023-01-16
16 <NA> recovered <NA> 2023-01-08 2023-01-14
17 <NA> recovered <NA> 2023-01-07 2023-01-13
18 <NA> recovered <NA> 2023-01-10 2023-01-16
19 <NA> recovered <NA> 2023-01-12 2023-01-15
20 2023-02-10 recovered <NA> 2023-01-12 2023-01-18
21 <NA> died 2023-02-05 2023-01-16 2023-01-21
22 <NA> recovered <NA> 2023-01-19 2023-01-23
23 <NA> recovered <NA> 2023-01-18 2023-01-24
24 <NA> recovered <NA> 2023-01-17 2023-01-21
25 <NA> recovered <NA> 2023-01-18 2023-01-21
26 <NA> recovered <NA> 2023-01-19 2023-01-25
27 <NA> recovered <NA> 2023-01-23 2023-01-28
28 2023-01-30 died 2023-02-16 2023-01-20 2023-01-28
29 <NA> recovered <NA> 2023-01-22 2023-01-25
30 2023-02-11 recovered <NA> 2023-01-20 2023-01-27
31 <NA> recovered <NA> 2023-01-23 2023-01-29
32 <NA> recovered <NA> 2023-01-17 2023-01-24
33 <NA> died 2023-02-14 2023-01-21 2023-01-26
34 2023-01-29 recovered <NA> 2023-01-17 2023-01-22
35 <NA> recovered <NA> 2023-01-15 2023-01-22
36 2023-02-02 died 2023-02-09 2023-01-20 2023-01-23
37 <NA> recovered <NA> 2023-01-27 2023-01-31
38 <NA> recovered <NA> 2023-01-26 2023-02-01
39 2023-02-08 died 2023-02-21 2023-01-28 2023-02-02
40 2023-02-05 recovered <NA> 2023-01-27 2023-01-30
41 <NA> recovered <NA> 2023-01-19 2023-01-28
42 <NA> died 2023-02-15 2023-01-25 2023-02-02
43 <NA> recovered <NA> 2023-01-26 2023-02-01
44 <NA> recovered <NA> 2023-01-26 2023-01-30
45 <NA> recovered <NA> 2023-01-31 2023-02-02
46 <NA> recovered <NA> 2023-01-30 2023-02-05
47 <NA> recovered <NA> 2023-01-28 2023-01-30
48 <NA> recovered <NA> 2023-01-24 2023-02-03
49 <NA> recovered <NA> 2023-01-28 2023-02-05
50 <NA> recovered <NA> 2023-02-03 2023-02-05
51 <NA> died 2023-02-14 2023-01-31 2023-02-04
52 <NA> died 2023-02-13 2023-01-27 2023-02-02
53 <NA> recovered <NA> 2023-01-28 2023-02-09
54 <NA> died 2023-02-28 2023-01-31 2023-02-10
55 <NA> recovered <NA> 2023-01-31 2023-02-05
56 <NA> recovered <NA> 2023-02-04 2023-02-08
57 <NA> recovered <NA> 2023-02-10 2023-02-17
58 <NA> recovered <NA> 2023-02-08 2023-02-13
59 <NA> recovered <NA> 2023-02-10 2023-02-12
60 <NA> recovered <NA> 2023-02-10 2023-02-16
61 <NA> recovered <NA> 2023-02-24 2023-03-01
62 2023-03-11 died 2023-03-25 2023-02-21 2023-02-26
63 <NA> recovered <NA> 2023-02-20 2023-02-26
64 <NA> recovered <NA> 2023-02-22 2023-02-26
65 <NA> recovered <NA> 2023-03-01 2023-03-07
66 <NA> recovered <NA> 2023-03-01 2023-03-04
67 <NA> recovered <NA> 2023-02-27 2023-03-13
68 <NA> recovered <NA> 2023-03-09 2023-03-11
69 2023-03-16 died 2023-03-22 2023-03-09 2023-03-13
70 <NA> recovered <NA> 2023-03-15 2023-03-20
71 <NA> recovered <NA> 2023-03-16 2023-03-23
72 <NA> recovered <NA> 2023-03-08 2023-03-15
73 <NA> recovered <NA> 2023-03-07 2023-03-14
74 2023-03-17 recovered <NA> 2023-03-09 2023-03-11
75 <NA> recovered <NA> 2023-03-03 2023-03-13
76 <NA> recovered <NA> 2023-03-11 2023-03-22
77 2023-03-31 recovered <NA> 2023-03-14 2023-03-19
78 <NA> recovered <NA> 2023-03-14 2023-03-16
79 <NA> recovered <NA> 2023-03-09 2023-03-18
80 <NA> recovered <NA> 2023-03-08 2023-03-16
81 <NA> recovered <NA> 2023-03-11 2023-03-18
82 <NA> recovered <NA> 2023-03-10 2023-03-18
83 <NA> recovered <NA> 2023-03-14 2023-03-19
84 <NA> recovered <NA> 2023-03-20 2023-03-26
85 <NA> recovered <NA> 2023-03-15 2023-03-19
86 <NA> recovered <NA> 2023-03-13 2023-03-20
87 2023-03-22 died 2023-04-03 2023-03-14 2023-03-16
88 <NA> recovered <NA> 2023-03-13 2023-03-15
89 <NA> recovered <NA> 2023-03-24 2023-03-28
90 <NA> recovered <NA> 2023-03-20 2023-03-27
91 <NA> recovered <NA> 2023-03-18 2023-03-23
92 <NA> recovered <NA> 2023-03-17 2023-03-23
93 <NA> recovered <NA> 2023-03-12 2023-03-21
94 <NA> died 2023-04-12 2023-03-23 2023-03-28
95 <NA> died 2023-04-20 2023-03-22 2023-03-30
96 <NA> recovered <NA> 2023-03-24 2023-03-27
97 2023-04-03 recovered <NA> 2023-03-22 2023-03-27
98 2023-04-03 recovered <NA> 2023-03-23 2023-04-01
99 <NA> recovered <NA> 2023-04-03 2023-04-06
100 <NA> recovered <NA> 2023-03-31 2023-04-07
101 2023-04-12 recovered <NA> 2023-04-01 2023-04-04
102 <NA> recovered <NA> 2023-03-26 2023-04-02
103 <NA> recovered <NA> 2023-03-24 2023-04-02
104 2023-04-12 recovered <NA> 2023-03-24 2023-04-01
105 <NA> recovered <NA> 2023-03-26 2023-04-03
106 <NA> recovered <NA> 2023-03-29 2023-03-31
107 2023-04-13 died 2023-04-14 2023-04-04 2023-04-10
108 2023-04-20 died 2023-04-28 2023-04-02 2023-04-05
109 <NA> recovered <NA> 2023-03-30 2023-04-07
110 <NA> recovered <NA> 2023-03-31 2023-04-03
111 <NA> died 2023-04-19 2023-04-02 2023-04-08
112 <NA> recovered <NA> 2023-03-31 2023-04-04
113 <NA> recovered <NA> 2023-04-09 2023-04-12
114 <NA> recovered <NA> 2023-04-06 2023-04-11
115 <NA> recovered <NA> 2023-04-01 2023-04-10
116 <NA> recovered <NA> 2023-04-02 2023-04-06
117 2023-04-13 died 2023-04-18 2023-04-03 2023-04-09
118 <NA> recovered <NA> 2023-04-06 2023-04-11
119 <NA> recovered <NA> 2023-04-03 2023-04-11
120 <NA> recovered <NA> 2023-04-09 2023-04-14
121 <NA> recovered <NA> 2023-03-30 2023-04-08
122 <NA> recovered <NA> 2023-04-02 2023-04-15
123 <NA> recovered <NA> 2023-04-08 2023-04-12
124 <NA> recovered <NA> 2023-04-09 2023-04-17
125 <NA> recovered <NA> 2023-04-09 2023-04-11
126 <NA> recovered <NA> 2023-04-08 2023-04-13
127 <NA> recovered <NA> 2023-04-06 2023-04-14
128 <NA> died 2023-04-25 2023-04-11 2023-04-15
129 <NA> recovered <NA> 2023-04-13 2023-04-19
130 <NA> recovered <NA> 2023-04-11 2023-04-20
131 <NA> recovered <NA> 2023-04-13 2023-04-21
132 2023-04-18 died 2023-05-02 2023-04-10 2023-04-20
133 2023-04-27 recovered <NA> 2023-04-14 2023-04-22
134 <NA> recovered <NA> 2023-04-15 2023-04-26
135 2023-04-24 recovered <NA> 2023-04-19 2023-04-27
136 2023-04-29 died 2023-05-05 2023-04-20 2023-04-23
137 <NA> recovered <NA> 2023-04-11 2023-04-14
138 2023-05-01 recovered <NA> 2023-04-23 2023-04-29
139 <NA> recovered <NA> 2023-04-15 2023-04-24
140 <NA> recovered <NA> 2023-04-16 2023-04-24
141 2023-04-26 recovered <NA> 2023-04-16 2023-04-22
142 <NA> recovered <NA> 2023-04-28 2023-05-01
143 <NA> recovered <NA> 2023-04-23 2023-05-01
144 <NA> recovered <NA> 2023-04-19 2023-04-23
145 <NA> recovered <NA> 2023-04-16 2023-04-22
146 <NA> recovered <NA> 2023-04-29 2023-05-09
147 <NA> recovered <NA> 2023-05-03 2023-05-07
148 <NA> recovered <NA> 2023-04-25 2023-05-05
149 <NA> recovered <NA> 2023-04-19 2023-05-02
150 <NA> recovered <NA> 2023-04-18 2023-04-25
151 2023-05-11 recovered <NA> 2023-05-01 2023-05-07
152 <NA> recovered <NA> 2023-04-25 2023-05-06
153 <NA> recovered <NA> 2023-04-19 2023-04-26
154 <NA> recovered <NA> 2023-04-20 2023-04-27
155 <NA> recovered <NA> 2023-04-25 2023-04-30
156 <NA> recovered <NA> 2023-05-05 2023-05-10
157 <NA> recovered <NA> 2023-04-22 2023-04-28
158 2023-05-21 died 2023-05-22 2023-04-27 2023-05-03
ct_value
1 NA
2 NA
3 24.8
4 NA
5 24.6
6 NA
7 26.5
8 NA
9 24.7
10 NA
11 24.5
12 21.7
13 21.5
14 24.2
15 NA
16 23.1
17 NA
18 NA
19 21.5
20 NA
21 21.5
22 26.4
23 NA
24 25.2
25 NA
26 NA
27 NA
28 25.8
29 NA
30 21.7
31 23.7
32 24.8
33 NA
34 23.6
35 NA
36 NA
37 NA
38 25.3
39 23.9
40 NA
41 NA
42 27.8
43 26.1
44 NA
45 NA
46 NA
47 24.3
48 NA
49 NA
50 NA
51 NA
52 25.9
53 24.2
54 NA
55 27.1
56 NA
57 27.1
58 24.3
59 24.5
60 NA
61 30.3
62 NA
63 NA
64 NA
65 NA
66 NA
67 25.2
68 23.0
69 NA
70 NA
71 25.7
72 25.1
73 NA
74 20.0
75 25.7
76 27.2
77 24.2
78 27.5
79 NA
80 25.3
81 27.2
82 NA
83 24.9
84 NA
85 NA
86 25.2
87 24.0
88 NA
89 NA
90 NA
91 26.8
92 24.2
93 29.1
94 24.1
95 23.7
96 23.4
97 25.2
98 NA
99 NA
100 NA
101 26.7
102 27.8
103 NA
104 NA
105 26.4
106 NA
107 20.5
108 26.4
109 28.1
110 25.6
111 NA
112 18.6
113 25.9
114 23.8
115 NA
116 24.9
117 23.2
118 24.0
119 NA
120 25.3
121 22.3
122 NA
123 25.3
124 NA
125 NA
126 NA
127 NA
128 NA
129 23.9
130 25.8
131 22.5
132 27.2
133 25.1
134 18.6
135 NA
136 23.1
137 24.6
138 25.7
139 26.2
140 NA
141 NA
142 NA
143 NA
144 NA
145 28.1
146 NA
147 NA
148 23.7
149 26.7
150 22.0
151 24.2
152 NA
153 23.7
154 25.4
155 22.5
156 29.0
157 NA
158 NA
sim_linelist works as expected
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with age-strat risks
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_risk = age_dep_hosp_risk, hosp_death_risk = age_dep_hosp_death_risk,
non_hosp_death_risk = age_dep_non_hosp_death_risk)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Wajdi al-Demian probable m 1 2023-01-01 2023-01-01
2 2 Durine Cobb confirmed f 29 2023-01-01 2023-01-01
3 3 Raaid el-Diab suspected m 78 2023-01-01 2023-01-01
4 5 Nickolas Nault confirmed m 70 2023-01-01 2023-01-01
5 6 Shanta Holiday suspected f 28 2023-01-01 2023-01-01
6 8 Mackenzie Ahn probable f 61 2023-01-01 2023-01-01
7 11 Mubarak el-Vaziri probable m 86 2023-01-01 2023-01-01
8 12 Raakaan al-Shams suspected m 71 2023-01-01 2023-01-01
9 13 Mikhaila Carlson confirmed f 51 2023-01-01 2023-01-01
10 18 Tae Woo Nguyen confirmed m 49 2023-01-02 2023-01-02
11 20 Annie Carter probable f 7 2023-01-02 2023-01-02
12 22 Thomas Morales probable m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 <NA> recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.2
3 NA
4 25.7
5 NA
6 NA
7 NA
8 NA
9 26.1
10 22.7
11 NA
12 NA
sim_linelist works as expected with anonymous
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
anonymise = TRUE)
Output
id case_name case_type sex age date_onset date_reporting date_admission
1 1 OvsRrRMCAJ confirmed m 1 2023-01-01 2023-01-01 2023-01-04
2 2 FEY3qKY39Z probable f 29 2023-01-01 2023-01-01 2023-01-02
3 3 yiuuoY8Kxn confirmed m 78 2023-01-01 2023-01-01 <NA>
4 5 Huaqm1SzNb probable m 70 2023-01-01 2023-01-01 2023-01-05
5 6 O5h4yEtT6t suspected f 28 2023-01-01 2023-01-01 2023-01-14
6 8 8e6yKFNmyd probable f 61 2023-01-01 2023-01-01 <NA>
7 11 Lkhw9tYeb1 confirmed m 86 2023-01-01 2023-01-01 <NA>
8 12 elczXnmE3U suspected m 71 2023-01-01 2023-01-01 2023-01-02
9 13 4HDzSVgVAW confirmed f 51 2023-01-01 2023-01-01 <NA>
10 18 To9HLY9VZd probable m 49 2023-01-02 2023-01-02 <NA>
11 20 czwJ3WvUcV confirmed f 7 2023-01-02 2023-01-02 <NA>
12 22 vu5Ak6RZkf confirmed m 24 2023-01-02 2023-01-02 <NA>
outcome date_outcome date_first_contact date_last_contact ct_value
1 died 2023-01-18 <NA> <NA> 26.4
2 died 2023-02-09 2022-12-30 2023-01-08 NA
3 recovered <NA> 2022-12-31 2023-01-05 26.1
4 recovered <NA> 2022-12-31 2023-01-04 NA
5 recovered <NA> 2022-12-29 2023-01-02 NA
6 recovered <NA> 2022-12-28 2023-01-05 NA
7 recovered <NA> 2022-12-30 2023-01-04 23.9
8 recovered <NA> 2022-12-28 2023-01-09 NA
9 recovered <NA> 2022-12-29 2023-01-04 22.3
10 recovered <NA> 2022-12-29 2023-01-04 NA
11 recovered <NA> 2022-12-31 2023-01-03 24.2
12 recovered <NA> 2022-12-27 2023-01-05 25.6
sim_linelist works as expected with age structure
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
population_age = age_struct)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Gabriel Black probable m 11 2023-01-01 2023-01-01
2 2 Taylor Graves confirmed f 10 2023-01-01 2023-01-01
3 3 Tyler Kelley suspected m 80 2023-01-01 2023-01-01
4 5 Cody Morales probable m 4 2023-01-01 2023-01-01
5 6 Cheyenne Sayavong confirmed f 84 2023-01-01 2023-01-01
6 8 Chantelle Vazquez-Luevano confirmed f 88 2023-01-01 2023-01-01
7 11 Rushdi al-Ishak confirmed m 71 2023-01-01 2023-01-01
8 12 Pierce Khanthavong suspected m 78 2023-01-01 2023-01-01
9 13 Megan Hayes confirmed f 28 2023-01-01 2023-01-01
10 18 Jackson Carlson confirmed m 51 2023-01-02 2023-01-02
11 20 Susana Varela probable f 75 2023-01-02 2023-01-02
12 22 Qaaid al-Madani probable m 48 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 <NA> recovered <NA> 2022-12-31 2023-01-04
5 <NA> recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-04 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 2023-01-06 recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 28.2
3 NA
4 NA
5 25.0
6 19.2
7 22.8
8 NA
9 28.1
10 23.0
11 NA
12 NA
sim_linelist works as expected with age-strat risks & age struct
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_risk = age_dep_hosp_risk, population_age = age_struct)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Gabriel Black probable m 11 2023-01-01 2023-01-01
2 2 Taylor Graves confirmed f 10 2023-01-01 2023-01-01
3 3 Tyler Kelley suspected m 80 2023-01-01 2023-01-01
4 5 Cody Morales probable m 4 2023-01-01 2023-01-01
5 6 Cheyenne Sayavong confirmed f 84 2023-01-01 2023-01-01
6 8 Chantelle Vazquez-Luevano confirmed f 88 2023-01-01 2023-01-01
7 11 Rushdi al-Ishak confirmed m 71 2023-01-01 2023-01-01
8 12 Pierce Khanthavong suspected m 78 2023-01-01 2023-01-01
9 13 Megan Hayes confirmed f 28 2023-01-01 2023-01-01
10 18 Jackson Carlson confirmed m 51 2023-01-02 2023-01-02
11 20 Susana Varela probable f 75 2023-01-02 2023-01-02
12 22 Qaaid al-Madani probable m 48 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 <NA> recovered <NA> 2022-12-31 2023-01-04
5 <NA> recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-04 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 2023-01-06 recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 28.2
3 NA
4 NA
5 25.0
6 19.2
7 22.8
8 NA
9 28.1
10 23.0
11 NA
12 NA
sim_linelist works as expected with modified config
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(last_contact_distribution = function(x) stats::rgeom(
n = x, prob = 0.5)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Claire Hicks confirmed f 44 2023-01-01 2023-01-01
2 2 Ashwini Ali confirmed f 77 2023-01-01 2023-01-01
3 3 Danielle Kuhn probable f 90 2023-01-01 2023-01-01
4 5 Treven Gallegos confirmed m 19 2023-01-01 2023-01-01
5 6 Lauren Nguyen suspected f 17 2023-01-01 2023-01-01
6 8 Mahdi al-Amini probable m 75 2023-01-01 2023-01-01
7 11 Brandon O'Reilly confirmed m 46 2023-01-01 2023-01-01
8 12 Selena Chun confirmed f 19 2023-01-01 2023-01-01
9 13 Royse Galvan confirmed m 75 2023-01-01 2023-01-01
10 18 Fahmi al-Masood suspected m 24 2023-01-02 2023-01-02
11 20 Kifaaya el-Ameen confirmed f 79 2023-01-02 2023-01-02
12 22 Martin Cavazos Castro probable m 39 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-31 2023-01-07
3 <NA> recovered <NA> 2022-12-30 2023-01-03
4 <NA> recovered <NA> 2022-12-29 2023-01-02
5 <NA> died 2023-01-16 2022-12-27 2023-01-01
6 <NA> recovered <NA> 2022-12-28 2023-01-04
7 <NA> recovered <NA> 2022-12-28 2023-01-02
8 <NA> recovered <NA> 2022-12-29 2023-01-01
9 <NA> recovered <NA> 2022-12-28 2023-01-01
10 <NA> recovered <NA> 2022-12-30 2023-01-01
11 <NA> recovered <NA> 2022-12-29 2023-01-02
12 <NA> recovered <NA> 2022-12-30 2023-01-03
ct_value
1 25.4
2 27.6
3 NA
4 24.4
5 NA
6 NA
7 21.7
8 26.9
9 22.8
10 NA
11 26.2
12 NA
sim_linelist works as expected with modified config parameters
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(last_contact_distribution = function(x) stats::rpois(
n = x, lambda = 5)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-11
3 <NA> recovered <NA> 2022-12-31 2023-01-07
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-05
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-04
6 <NA> recovered <NA> 2022-12-28 2023-01-07
7 <NA> recovered <NA> 2022-12-30 2023-01-07
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-12
9 <NA> recovered <NA> 2022-12-29 2023-01-06
10 <NA> recovered <NA> 2022-12-29 2023-01-06
11 <NA> recovered <NA> 2022-12-31 2023-01-04
12 <NA> recovered <NA> 2022-12-27 2023-01-07
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with time-varying cfr
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(time_varying_death_risk = function(risk, time) risk *
exp(-time)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with time-varying cfr & age-strat
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_death_risk = age_dep_hosp_death_risk, config = create_config(
time_varying_death_risk = function(risk, time) risk * exp(-time)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Wajdi al-Demian probable m 1 2023-01-01 2023-01-01
2 2 Durine Cobb confirmed f 29 2023-01-01 2023-01-01
3 3 Raaid el-Diab suspected m 78 2023-01-01 2023-01-01
4 5 Nickolas Nault confirmed m 70 2023-01-01 2023-01-01
5 6 Shanta Holiday suspected f 28 2023-01-01 2023-01-01
6 8 Mackenzie Ahn probable f 61 2023-01-01 2023-01-01
7 11 Mubarak el-Vaziri probable m 86 2023-01-01 2023-01-01
8 12 Raakaan al-Shams suspected m 71 2023-01-01 2023-01-01
9 13 Mikhaila Carlson confirmed f 51 2023-01-01 2023-01-01
10 18 Tae Woo Nguyen confirmed m 49 2023-01-02 2023-01-02
11 20 Annie Carter probable f 7 2023-01-02 2023-01-02
12 22 Thomas Morales probable m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 recovered <NA> <NA> <NA>
2 2023-01-02 recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.2
3 NA
4 25.7
5 NA
6 NA
7 NA
8 NA
9 26.1
10 22.7
11 NA
12 NA
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simulist documentation built on April 12, 2025, 1:34 a.m.
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sim_linelist works as expected with defaults
Code
sim_linelist()
Output
id case_name case_type sex age date_onset date_reporting
1 1 Lolette Phillips suspected f 59 2023-01-01 2023-01-01
2 2 James Jack suspected m 90 2023-01-01 2023-01-01
3 3 Chen Kantha confirmed m 4 2023-01-02 2023-01-02
4 5 Saleema al-Zaki probable f 29 2023-01-04 2023-01-04
5 6 David Ponzio confirmed m 14 2023-01-05 2023-01-05
6 7 Christopher Ward probable m 85 2023-01-06 2023-01-06
7 10 Laura Ilaoa confirmed f 25 2023-01-13 2023-01-13
8 11 Morgan Mason suspected f 34 2023-01-11 2023-01-11
9 12 Cornelius Turner confirmed m 89 2023-01-13 2023-01-13
10 14 Shaddaad el-Younes suspected m 63 2023-01-11 2023-01-11
11 18 Carlo Ceazar Corpuz confirmed m 74 2023-01-14 2023-01-14
12 19 Bishr al-Qasim confirmed m 34 2023-01-12 2023-01-12
13 22 Nichole Mcfarland confirmed f 29 2023-01-12 2023-01-12
14 24 Jubair el-Aly confirmed m 46 2023-01-13 2023-01-13
15 27 Hafsa al-Massoud probable f 24 2023-01-14 2023-01-14
16 29 Trever Manis confirmed m 41 2023-01-21 2023-01-21
17 30 Maiya Vathanavarin suspected f 72 2023-01-19 2023-01-19
18 31 Ghaamid el-Zafar probable m 6 2023-01-20 2023-01-20
19 33 Kelly Runningbear-Paul confirmed f 61 2023-01-14 2023-01-14
20 34 James Welter probable m 44 2023-01-14 2023-01-14
21 35 Austin Manheimer confirmed m 71 2023-01-27 2023-01-27
22 38 Orville Stadelbauer confirmed m 69 2023-01-23 2023-01-23
23 39 Jennifer Ouk probable f 61 2023-01-23 2023-01-23
24 41 Nafeesa al-Zaher confirmed f 64 2023-01-24 2023-01-24
25 44 Nawwaara el-Pasha probable f 61 2023-01-22 2023-01-22
26 45 Saleet el-Mohammed probable m 66 2023-01-22 2023-01-22
27 47 Christian Mendoza probable m 81 2023-01-28 2023-01-28
28 50 Eraina Mcgee confirmed f 53 2023-01-28 2023-01-28
29 51 Mia Floyd probable f 45 2023-01-29 2023-01-29
30 53 Collin Chavez confirmed m 42 2023-02-02 2023-02-02
31 54 Itzel Gonzales confirmed f 78 2023-02-03 2023-02-03
32 55 Alexis Caramillo confirmed f 35 2023-01-24 2023-01-24
33 56 Ronnie Scurlock suspected m 54 2023-01-26 2023-01-26
34 58 Shane Ahmad confirmed m 68 2023-01-25 2023-01-25
35 59 Ghaaliya al-Shaheed probable f 3 2023-01-23 2023-01-23
36 60 Exzinia Smith probable f 44 2023-01-29 2023-01-29
37 63 Rhiannon Freeland probable f 62 2023-01-31 2023-01-31
38 64 Deisha Beckner confirmed f 35 2023-01-29 2023-01-29
39 65 Nelly Reyez confirmed f 90 2023-02-03 2023-02-03
40 66 Nadheera el-Mohiuddin probable f 25 2023-02-01 2023-02-01
41 71 Caroline Vargas Pena probable f 46 2023-01-29 2023-01-29
42 73 Mathurin Curtis confirmed m 8 2023-02-01 2023-02-01
43 77 Kevin Shahi confirmed m 63 2023-01-30 2023-01-30
44 78 Diksha Reichal suspected f 54 2023-01-29 2023-01-29
45 80 Jazmine Sturgeon probable f 67 2023-02-03 2023-02-03
46 85 Sally Richardson probable f 37 2023-02-02 2023-02-02
47 88 Laraena Batson confirmed f 73 2023-01-30 2023-01-30
48 89 Monica Ye probable f 13 2023-02-02 2023-02-02
49 90 Kashauna Yorks probable f 72 2023-02-01 2023-02-01
50 93 Carmelita Montoya probable f 61 2023-02-04 2023-02-04
51 97 Aliyya el-Yassin probable f 22 2023-02-05 2023-02-05
52 98 Alicia Vue confirmed f 29 2023-02-04 2023-02-04
53 101 Rashele Williams confirmed f 17 2023-02-07 2023-02-07
54 108 Isabella Medina probable f 71 2023-02-14 2023-02-14
55 111 Samuel Goodfellow confirmed m 90 2023-02-09 2023-02-09
56 113 Bertha Mohar probable f 23 2023-02-12 2023-02-12
57 114 Mu,Aawiya al-Kaba confirmed m 35 2023-02-16 2023-02-16
58 116 Andrew Garcia confirmed m 62 2023-02-24 2023-02-24
59 119 Trevor Colligan confirmed m 57 2023-02-23 2023-02-23
60 120 Taaj el-Sarah suspected m 44 2023-02-18 2023-02-18
61 122 Savannah Cohen confirmed f 57 2023-03-02 2023-03-02
62 123 Nawfa el-Anwar suspected f 63 2023-03-08 2023-03-08
63 125 Ryan Zheng suspected m 46 2023-02-28 2023-02-28
64 126 Henry Reichman suspected m 66 2023-02-26 2023-02-26
65 130 Shannon Armbrust probable f 68 2023-03-07 2023-03-07
66 131 Orilea Diego probable f 12 2023-03-09 2023-03-09
67 133 Kloe Avila confirmed f 51 2023-03-18 2023-03-18
68 138 Sarah Griffith confirmed f 2 2023-03-10 2023-03-10
69 139 Kara Finken probable f 53 2023-03-09 2023-03-09
70 142 Raul Aguirre Molina probable m 76 2023-03-23 2023-03-23
71 143 Mikayla Smith confirmed f 82 2023-03-21 2023-03-21
72 145 Mansoor al-Siddique confirmed m 25 2023-03-15 2023-03-15
73 146 Nizaam al-Salame suspected m 76 2023-03-13 2023-03-13
74 147 Alexis Harding confirmed f 14 2023-03-13 2023-03-13
75 150 Unique Vigil confirmed f 76 2023-03-11 2023-03-11
76 153 Tanya Mcadoo confirmed f 78 2023-03-15 2023-03-15
77 154 Shawn Morgan confirmed m 75 2023-03-24 2023-03-24
78 155 Asysa Robinson confirmed f 76 2023-03-24 2023-03-24
79 157 Sakeena al-Abdoo suspected f 80 2023-03-18 2023-03-18
80 158 Richard Prum confirmed m 41 2023-03-18 2023-03-18
81 159 Shahla al-Jaffer confirmed f 78 2023-03-19 2023-03-19
82 163 Kailey Braden suspected f 28 2023-03-15 2023-03-15
83 164 Raadiya el-Chahine confirmed f 2 2023-03-21 2023-03-21
84 166 Janie Santa Cruz probable f 82 2023-03-26 2023-03-26
85 171 Alvaro Romero probable m 5 2023-03-22 2023-03-22
86 172 Lane Rodriguez confirmed m 1 2023-03-20 2023-03-20
87 173 Ka Lee confirmed m 44 2023-03-19 2023-03-19
88 174 Qaaid al-Shaker suspected m 76 2023-03-16 2023-03-16
89 175 Munsif al-Ozer suspected m 3 2023-03-29 2023-03-29
90 176 Sharon Watson probable f 15 2023-03-25 2023-03-25
91 177 Danielle Ouellette confirmed f 19 2023-03-26 2023-03-26
92 178 Abdur Rasheed al-Salahuddin confirmed m 76 2023-03-25 2023-03-25
93 182 Samuel Videtzky confirmed m 90 2023-03-27 2023-03-27
94 186 Shalise Peters-Maloy confirmed f 64 2023-04-03 2023-04-03
95 189 Jay Herman confirmed m 35 2023-03-29 2023-03-29
96 195 Manaara el-Saba confirmed f 84 2023-03-27 2023-03-27
97 196 Amelia Gallegos confirmed f 18 2023-03-30 2023-03-30
98 197 Brieannah Coles suspected f 79 2023-03-28 2023-03-28
99 199 Sarah Vu suspected f 49 2023-04-07 2023-04-07
100 200 Mason Powells probable m 56 2023-04-05 2023-04-05
101 201 Ashley Dotson confirmed f 76 2023-04-07 2023-04-07
102 202 Abdul Ghafoor al-Firman confirmed m 41 2023-04-03 2023-04-03
103 205 Vincent Arnick suspected m 29 2023-04-01 2023-04-01
104 209 Razeen al-Sala suspected m 39 2023-04-05 2023-04-05
105 210 Rusty Figueroa confirmed m 32 2023-04-01 2023-04-01
106 211 Emma Jones suspected f 9 2023-04-06 2023-04-06
107 213 Cam Tu Quilon confirmed f 39 2023-04-11 2023-04-11
108 214 Fisayo Wallace confirmed m 12 2023-04-17 2023-04-17
109 219 Alejandra Purdham confirmed f 52 2023-04-10 2023-04-10
110 221 Yahya el-Aslam confirmed m 22 2023-04-02 2023-04-02
111 224 Nabeel el-Karam probable m 68 2023-04-08 2023-04-08
112 226 Sandra Rodriquez confirmed f 57 2023-04-06 2023-04-06
113 229 Ameen al-Shakir confirmed m 8 2023-04-12 2023-04-12
114 230 Azmi el-Safar confirmed m 28 2023-04-12 2023-04-12
115 232 Laaiqa el-Azizi suspected f 2 2023-04-02 2023-04-02
116 233 Jose Lopez confirmed m 84 2023-04-09 2023-04-09
117 234 Mreenal Solberg confirmed f 52 2023-04-09 2023-04-09
118 235 Kevin Behr confirmed m 58 2023-04-12 2023-04-12
119 236 Khyleah Jones suspected f 29 2023-04-10 2023-04-10
120 238 Quinn Barrett confirmed m 30 2023-04-14 2023-04-14
121 240 Bryanna Medrano confirmed f 71 2023-04-15 2023-04-15
122 243 Marques Rice suspected m 43 2023-04-13 2023-04-13
123 245 Andrew Zaragoza-Madrid confirmed m 40 2023-04-15 2023-04-15
124 250 Julanne El-Amin suspected f 46 2023-04-16 2023-04-16
125 251 Jason Sowards suspected m 69 2023-04-11 2023-04-11
126 252 Yeeleng Tran suspected m 69 2023-04-20 2023-04-20
127 253 Isaac Reid probable m 38 2023-04-20 2023-04-20
128 254 Lawrence Williams probable m 28 2023-04-16 2023-04-16
129 255 Adrian Anaya confirmed m 82 2023-04-16 2023-04-16
130 258 Colette Torres confirmed f 19 2023-04-14 2023-04-14
131 261 Jose Luna confirmed m 46 2023-04-26 2023-04-26
132 262 Ummu Kulthoom al-Ghaffari confirmed f 71 2023-04-13 2023-04-13
133 264 Luna Vigil confirmed f 4 2023-04-25 2023-04-25
134 265 Jasmine Evans confirmed f 31 2023-04-25 2023-04-25
135 267 Javon Jenkins probable m 16 2023-04-20 2023-04-20
136 268 Clifton Charron confirmed m 53 2023-04-21 2023-04-21
137 277 Zachary Stuart confirmed m 14 2023-05-01 2023-05-01
138 278 Naseer el-Javed confirmed m 48 2023-04-28 2023-04-28
139 279 Alexis Stafford confirmed f 89 2023-04-25 2023-04-25
140 280 Razeen el-Azad suspected m 39 2023-04-26 2023-04-26
141 282 Jordan Marshall probable f 20 2023-04-21 2023-04-21
142 284 Marcus Erman probable m 6 2023-05-03 2023-05-03
143 285 Ismad al-Badour probable m 28 2023-05-05 2023-05-05
144 291 Firdaus el-Farha suspected f 42 2023-05-01 2023-05-01
145 292 Jane David confirmed f 71 2023-04-23 2023-04-23
146 293 Corina Morales probable f 9 2023-05-05 2023-05-05
147 296 Justin Delori suspected m 61 2023-05-06 2023-05-06
148 298 Janalen Nguyen confirmed f 53 2023-05-02 2023-05-02
149 301 Naseera al-Arif confirmed f 76 2023-04-23 2023-04-23
150 302 Andrew Sun confirmed m 69 2023-04-26 2023-04-26
151 304 Ty Rains confirmed m 50 2023-05-07 2023-05-07
152 307 Javier Valdez probable m 7 2023-05-09 2023-05-09
153 310 Kyana Ludwig confirmed f 45 2023-04-24 2023-04-24
154 311 Jessie Berry confirmed f 83 2023-04-25 2023-04-25
155 313 Jazmyn Guyton confirmed f 41 2023-04-27 2023-04-27
156 316 Gia Garcia confirmed f 88 2023-05-10 2023-05-10
157 320 John Trujillo probable m 79 2023-05-01 2023-05-01
158 326 Haley Hamlin probable f 82 2023-05-08 2023-05-08
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-09 died 2023-01-13 <NA> <NA>
2 <NA> recovered <NA> 2022-12-29 2023-01-03
3 <NA> recovered <NA> 2022-12-28 2023-01-01
4 <NA> recovered <NA> 2022-12-28 2023-01-04
5 2023-01-09 died 2023-01-23 2022-12-31 2023-01-04
6 2023-01-08 recovered <NA> 2022-12-31 2023-01-06
7 <NA> recovered <NA> 2023-01-02 2023-01-07
8 2023-01-24 died 2023-01-27 2023-01-03 2023-01-07
9 <NA> recovered <NA> 2023-01-03 2023-01-11
10 <NA> recovered <NA> 2023-01-04 2023-01-09
11 <NA> recovered <NA> 2023-01-09 2023-01-17
12 <NA> recovered <NA> 2023-01-07 2023-01-14
13 <NA> recovered <NA> 2023-01-07 2023-01-17
14 <NA> recovered <NA> 2023-01-08 2023-01-15
15 2023-01-19 died 2023-01-27 2023-01-09 2023-01-16
16 <NA> recovered <NA> 2023-01-08 2023-01-14
17 <NA> recovered <NA> 2023-01-07 2023-01-13
18 <NA> recovered <NA> 2023-01-10 2023-01-16
19 <NA> recovered <NA> 2023-01-12 2023-01-15
20 2023-02-10 recovered <NA> 2023-01-12 2023-01-18
21 <NA> died 2023-02-05 2023-01-16 2023-01-21
22 <NA> recovered <NA> 2023-01-19 2023-01-23
23 <NA> recovered <NA> 2023-01-18 2023-01-24
24 <NA> recovered <NA> 2023-01-17 2023-01-21
25 <NA> recovered <NA> 2023-01-18 2023-01-21
26 <NA> recovered <NA> 2023-01-19 2023-01-25
27 <NA> recovered <NA> 2023-01-23 2023-01-28
28 2023-01-30 died 2023-02-16 2023-01-20 2023-01-28
29 <NA> recovered <NA> 2023-01-22 2023-01-25
30 2023-02-11 recovered <NA> 2023-01-20 2023-01-27
31 <NA> recovered <NA> 2023-01-23 2023-01-29
32 <NA> recovered <NA> 2023-01-17 2023-01-24
33 <NA> died 2023-02-14 2023-01-21 2023-01-26
34 2023-01-29 recovered <NA> 2023-01-17 2023-01-22
35 <NA> recovered <NA> 2023-01-15 2023-01-22
36 2023-02-02 died 2023-02-09 2023-01-20 2023-01-23
37 <NA> recovered <NA> 2023-01-27 2023-01-31
38 <NA> recovered <NA> 2023-01-26 2023-02-01
39 2023-02-08 died 2023-02-21 2023-01-28 2023-02-02
40 2023-02-05 recovered <NA> 2023-01-27 2023-01-30
41 <NA> recovered <NA> 2023-01-19 2023-01-28
42 <NA> died 2023-02-15 2023-01-25 2023-02-02
43 <NA> recovered <NA> 2023-01-26 2023-02-01
44 <NA> recovered <NA> 2023-01-26 2023-01-30
45 <NA> recovered <NA> 2023-01-31 2023-02-02
46 <NA> recovered <NA> 2023-01-30 2023-02-05
47 <NA> recovered <NA> 2023-01-28 2023-01-30
48 <NA> recovered <NA> 2023-01-24 2023-02-03
49 <NA> recovered <NA> 2023-01-28 2023-02-05
50 <NA> recovered <NA> 2023-02-03 2023-02-05
51 <NA> died 2023-02-14 2023-01-31 2023-02-04
52 <NA> died 2023-02-13 2023-01-27 2023-02-02
53 <NA> recovered <NA> 2023-01-28 2023-02-09
54 <NA> died 2023-02-28 2023-01-31 2023-02-10
55 <NA> recovered <NA> 2023-01-31 2023-02-05
56 <NA> recovered <NA> 2023-02-04 2023-02-08
57 <NA> recovered <NA> 2023-02-10 2023-02-17
58 <NA> recovered <NA> 2023-02-08 2023-02-13
59 <NA> recovered <NA> 2023-02-10 2023-02-12
60 <NA> recovered <NA> 2023-02-10 2023-02-16
61 <NA> recovered <NA> 2023-02-24 2023-03-01
62 2023-03-11 died 2023-03-25 2023-02-21 2023-02-26
63 <NA> recovered <NA> 2023-02-20 2023-02-26
64 <NA> recovered <NA> 2023-02-22 2023-02-26
65 <NA> recovered <NA> 2023-03-01 2023-03-07
66 <NA> recovered <NA> 2023-03-01 2023-03-04
67 <NA> recovered <NA> 2023-02-27 2023-03-13
68 <NA> recovered <NA> 2023-03-09 2023-03-11
69 2023-03-16 died 2023-03-22 2023-03-09 2023-03-13
70 <NA> recovered <NA> 2023-03-15 2023-03-20
71 <NA> recovered <NA> 2023-03-16 2023-03-23
72 <NA> recovered <NA> 2023-03-08 2023-03-15
73 <NA> recovered <NA> 2023-03-07 2023-03-14
74 2023-03-17 recovered <NA> 2023-03-09 2023-03-11
75 <NA> recovered <NA> 2023-03-03 2023-03-13
76 <NA> recovered <NA> 2023-03-11 2023-03-22
77 2023-03-31 recovered <NA> 2023-03-14 2023-03-19
78 <NA> recovered <NA> 2023-03-14 2023-03-16
79 <NA> recovered <NA> 2023-03-09 2023-03-18
80 <NA> recovered <NA> 2023-03-08 2023-03-16
81 <NA> recovered <NA> 2023-03-11 2023-03-18
82 <NA> recovered <NA> 2023-03-10 2023-03-18
83 <NA> recovered <NA> 2023-03-14 2023-03-19
84 <NA> recovered <NA> 2023-03-20 2023-03-26
85 <NA> recovered <NA> 2023-03-15 2023-03-19
86 <NA> recovered <NA> 2023-03-13 2023-03-20
87 2023-03-22 died 2023-04-03 2023-03-14 2023-03-16
88 <NA> recovered <NA> 2023-03-13 2023-03-15
89 <NA> recovered <NA> 2023-03-24 2023-03-28
90 <NA> recovered <NA> 2023-03-20 2023-03-27
91 <NA> recovered <NA> 2023-03-18 2023-03-23
92 <NA> recovered <NA> 2023-03-17 2023-03-23
93 <NA> recovered <NA> 2023-03-12 2023-03-21
94 <NA> died 2023-04-12 2023-03-23 2023-03-28
95 <NA> died 2023-04-20 2023-03-22 2023-03-30
96 <NA> recovered <NA> 2023-03-24 2023-03-27
97 2023-04-03 recovered <NA> 2023-03-22 2023-03-27
98 2023-04-03 recovered <NA> 2023-03-23 2023-04-01
99 <NA> recovered <NA> 2023-04-03 2023-04-06
100 <NA> recovered <NA> 2023-03-31 2023-04-07
101 2023-04-12 recovered <NA> 2023-04-01 2023-04-04
102 <NA> recovered <NA> 2023-03-26 2023-04-02
103 <NA> recovered <NA> 2023-03-24 2023-04-02
104 2023-04-12 recovered <NA> 2023-03-24 2023-04-01
105 <NA> recovered <NA> 2023-03-26 2023-04-03
106 <NA> recovered <NA> 2023-03-29 2023-03-31
107 2023-04-13 died 2023-04-14 2023-04-04 2023-04-10
108 2023-04-20 died 2023-04-28 2023-04-02 2023-04-05
109 <NA> recovered <NA> 2023-03-30 2023-04-07
110 <NA> recovered <NA> 2023-03-31 2023-04-03
111 <NA> died 2023-04-19 2023-04-02 2023-04-08
112 <NA> recovered <NA> 2023-03-31 2023-04-04
113 <NA> recovered <NA> 2023-04-09 2023-04-12
114 <NA> recovered <NA> 2023-04-06 2023-04-11
115 <NA> recovered <NA> 2023-04-01 2023-04-10
116 <NA> recovered <NA> 2023-04-02 2023-04-06
117 2023-04-13 died 2023-04-18 2023-04-03 2023-04-09
118 <NA> recovered <NA> 2023-04-06 2023-04-11
119 <NA> recovered <NA> 2023-04-03 2023-04-11
120 <NA> recovered <NA> 2023-04-09 2023-04-14
121 <NA> recovered <NA> 2023-03-30 2023-04-08
122 <NA> recovered <NA> 2023-04-02 2023-04-15
123 <NA> recovered <NA> 2023-04-08 2023-04-12
124 <NA> recovered <NA> 2023-04-09 2023-04-17
125 <NA> recovered <NA> 2023-04-09 2023-04-11
126 <NA> recovered <NA> 2023-04-08 2023-04-13
127 <NA> recovered <NA> 2023-04-06 2023-04-14
128 <NA> died 2023-04-25 2023-04-11 2023-04-15
129 <NA> recovered <NA> 2023-04-13 2023-04-19
130 <NA> recovered <NA> 2023-04-11 2023-04-20
131 <NA> recovered <NA> 2023-04-13 2023-04-21
132 2023-04-18 died 2023-05-02 2023-04-10 2023-04-20
133 2023-04-27 recovered <NA> 2023-04-14 2023-04-22
134 <NA> recovered <NA> 2023-04-15 2023-04-26
135 2023-04-24 recovered <NA> 2023-04-19 2023-04-27
136 2023-04-29 died 2023-05-05 2023-04-20 2023-04-23
137 <NA> recovered <NA> 2023-04-11 2023-04-14
138 2023-05-01 recovered <NA> 2023-04-23 2023-04-29
139 <NA> recovered <NA> 2023-04-15 2023-04-24
140 <NA> recovered <NA> 2023-04-16 2023-04-24
141 2023-04-26 recovered <NA> 2023-04-16 2023-04-22
142 <NA> recovered <NA> 2023-04-28 2023-05-01
143 <NA> recovered <NA> 2023-04-23 2023-05-01
144 <NA> recovered <NA> 2023-04-19 2023-04-23
145 <NA> recovered <NA> 2023-04-16 2023-04-22
146 <NA> recovered <NA> 2023-04-29 2023-05-09
147 <NA> recovered <NA> 2023-05-03 2023-05-07
148 <NA> recovered <NA> 2023-04-25 2023-05-05
149 <NA> recovered <NA> 2023-04-19 2023-05-02
150 <NA> recovered <NA> 2023-04-18 2023-04-25
151 2023-05-11 recovered <NA> 2023-05-01 2023-05-07
152 <NA> recovered <NA> 2023-04-25 2023-05-06
153 <NA> recovered <NA> 2023-04-19 2023-04-26
154 <NA> recovered <NA> 2023-04-20 2023-04-27
155 <NA> recovered <NA> 2023-04-25 2023-04-30
156 <NA> recovered <NA> 2023-05-05 2023-05-10
157 <NA> recovered <NA> 2023-04-22 2023-04-28
158 2023-05-21 died 2023-05-22 2023-04-27 2023-05-03
ct_value
1 NA
2 NA
3 24.8
4 NA
5 24.6
6 NA
7 26.5
8 NA
9 24.7
10 NA
11 24.5
12 21.7
13 21.5
14 24.2
15 NA
16 23.1
17 NA
18 NA
19 21.5
20 NA
21 21.5
22 26.4
23 NA
24 25.2
25 NA
26 NA
27 NA
28 25.8
29 NA
30 21.7
31 23.7
32 24.8
33 NA
34 23.6
35 NA
36 NA
37 NA
38 25.3
39 23.9
40 NA
41 NA
42 27.8
43 26.1
44 NA
45 NA
46 NA
47 24.3
48 NA
49 NA
50 NA
51 NA
52 25.9
53 24.2
54 NA
55 27.1
56 NA
57 27.1
58 24.3
59 24.5
60 NA
61 30.3
62 NA
63 NA
64 NA
65 NA
66 NA
67 25.2
68 23.0
69 NA
70 NA
71 25.7
72 25.1
73 NA
74 20.0
75 25.7
76 27.2
77 24.2
78 27.5
79 NA
80 25.3
81 27.2
82 NA
83 24.9
84 NA
85 NA
86 25.2
87 24.0
88 NA
89 NA
90 NA
91 26.8
92 24.2
93 29.1
94 24.1
95 23.7
96 23.4
97 25.2
98 NA
99 NA
100 NA
101 26.7
102 27.8
103 NA
104 NA
105 26.4
106 NA
107 20.5
108 26.4
109 28.1
110 25.6
111 NA
112 18.6
113 25.9
114 23.8
115 NA
116 24.9
117 23.2
118 24.0
119 NA
120 25.3
121 22.3
122 NA
123 25.3
124 NA
125 NA
126 NA
127 NA
128 NA
129 23.9
130 25.8
131 22.5
132 27.2
133 25.1
134 18.6
135 NA
136 23.1
137 24.6
138 25.7
139 26.2
140 NA
141 NA
142 NA
143 NA
144 NA
145 28.1
146 NA
147 NA
148 23.7
149 26.7
150 22.0
151 24.2
152 NA
153 23.7
154 25.4
155 22.5
156 29.0
157 NA
158 NA
sim_linelist works as expected
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with age-strat risks
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_risk = age_dep_hosp_risk, hosp_death_risk = age_dep_hosp_death_risk,
non_hosp_death_risk = age_dep_non_hosp_death_risk)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Wajdi al-Demian probable m 1 2023-01-01 2023-01-01
2 2 Durine Cobb confirmed f 29 2023-01-01 2023-01-01
3 3 Raaid el-Diab suspected m 78 2023-01-01 2023-01-01
4 5 Nickolas Nault confirmed m 70 2023-01-01 2023-01-01
5 6 Shanta Holiday suspected f 28 2023-01-01 2023-01-01
6 8 Mackenzie Ahn probable f 61 2023-01-01 2023-01-01
7 11 Mubarak el-Vaziri probable m 86 2023-01-01 2023-01-01
8 12 Raakaan al-Shams suspected m 71 2023-01-01 2023-01-01
9 13 Mikhaila Carlson confirmed f 51 2023-01-01 2023-01-01
10 18 Tae Woo Nguyen confirmed m 49 2023-01-02 2023-01-02
11 20 Annie Carter probable f 7 2023-01-02 2023-01-02
12 22 Thomas Morales probable m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 <NA> recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.2
3 NA
4 25.7
5 NA
6 NA
7 NA
8 NA
9 26.1
10 22.7
11 NA
12 NA
sim_linelist works as expected with anonymous
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
anonymise = TRUE)
Output
id case_name case_type sex age date_onset date_reporting date_admission
1 1 OvsRrRMCAJ confirmed m 1 2023-01-01 2023-01-01 2023-01-04
2 2 FEY3qKY39Z probable f 29 2023-01-01 2023-01-01 2023-01-02
3 3 yiuuoY8Kxn confirmed m 78 2023-01-01 2023-01-01 <NA>
4 5 Huaqm1SzNb probable m 70 2023-01-01 2023-01-01 2023-01-05
5 6 O5h4yEtT6t suspected f 28 2023-01-01 2023-01-01 2023-01-14
6 8 8e6yKFNmyd probable f 61 2023-01-01 2023-01-01 <NA>
7 11 Lkhw9tYeb1 confirmed m 86 2023-01-01 2023-01-01 <NA>
8 12 elczXnmE3U suspected m 71 2023-01-01 2023-01-01 2023-01-02
9 13 4HDzSVgVAW confirmed f 51 2023-01-01 2023-01-01 <NA>
10 18 To9HLY9VZd probable m 49 2023-01-02 2023-01-02 <NA>
11 20 czwJ3WvUcV confirmed f 7 2023-01-02 2023-01-02 <NA>
12 22 vu5Ak6RZkf confirmed m 24 2023-01-02 2023-01-02 <NA>
outcome date_outcome date_first_contact date_last_contact ct_value
1 died 2023-01-18 <NA> <NA> 26.4
2 died 2023-02-09 2022-12-30 2023-01-08 NA
3 recovered <NA> 2022-12-31 2023-01-05 26.1
4 recovered <NA> 2022-12-31 2023-01-04 NA
5 recovered <NA> 2022-12-29 2023-01-02 NA
6 recovered <NA> 2022-12-28 2023-01-05 NA
7 recovered <NA> 2022-12-30 2023-01-04 23.9
8 recovered <NA> 2022-12-28 2023-01-09 NA
9 recovered <NA> 2022-12-29 2023-01-04 22.3
10 recovered <NA> 2022-12-29 2023-01-04 NA
11 recovered <NA> 2022-12-31 2023-01-03 24.2
12 recovered <NA> 2022-12-27 2023-01-05 25.6
sim_linelist works as expected with age structure
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
population_age = age_struct)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Gabriel Black probable m 11 2023-01-01 2023-01-01
2 2 Taylor Graves confirmed f 10 2023-01-01 2023-01-01
3 3 Tyler Kelley suspected m 80 2023-01-01 2023-01-01
4 5 Cody Morales probable m 4 2023-01-01 2023-01-01
5 6 Cheyenne Sayavong confirmed f 84 2023-01-01 2023-01-01
6 8 Chantelle Vazquez-Luevano confirmed f 88 2023-01-01 2023-01-01
7 11 Rushdi al-Ishak confirmed m 71 2023-01-01 2023-01-01
8 12 Pierce Khanthavong suspected m 78 2023-01-01 2023-01-01
9 13 Megan Hayes confirmed f 28 2023-01-01 2023-01-01
10 18 Jackson Carlson confirmed m 51 2023-01-02 2023-01-02
11 20 Susana Varela probable f 75 2023-01-02 2023-01-02
12 22 Qaaid al-Madani probable m 48 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 <NA> recovered <NA> 2022-12-31 2023-01-04
5 <NA> recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-04 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 2023-01-06 recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 28.2
3 NA
4 NA
5 25.0
6 19.2
7 22.8
8 NA
9 28.1
10 23.0
11 NA
12 NA
sim_linelist works as expected with age-strat risks & age struct
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_risk = age_dep_hosp_risk, population_age = age_struct)
Output
id case_name case_type sex age date_onset date_reporting
1 1 Gabriel Black probable m 11 2023-01-01 2023-01-01
2 2 Taylor Graves confirmed f 10 2023-01-01 2023-01-01
3 3 Tyler Kelley suspected m 80 2023-01-01 2023-01-01
4 5 Cody Morales probable m 4 2023-01-01 2023-01-01
5 6 Cheyenne Sayavong confirmed f 84 2023-01-01 2023-01-01
6 8 Chantelle Vazquez-Luevano confirmed f 88 2023-01-01 2023-01-01
7 11 Rushdi al-Ishak confirmed m 71 2023-01-01 2023-01-01
8 12 Pierce Khanthavong suspected m 78 2023-01-01 2023-01-01
9 13 Megan Hayes confirmed f 28 2023-01-01 2023-01-01
10 18 Jackson Carlson confirmed m 51 2023-01-02 2023-01-02
11 20 Susana Varela probable f 75 2023-01-02 2023-01-02
12 22 Qaaid al-Madani probable m 48 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 <NA> recovered <NA> 2022-12-31 2023-01-04
5 <NA> recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-04 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 2023-01-06 recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 28.2
3 NA
4 NA
5 25.0
6 19.2
7 22.8
8 NA
9 28.1
10 23.0
11 NA
12 NA
sim_linelist works as expected with modified config
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(last_contact_distribution = function(x) stats::rgeom(
n = x, prob = 0.5)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Claire Hicks confirmed f 44 2023-01-01 2023-01-01
2 2 Ashwini Ali confirmed f 77 2023-01-01 2023-01-01
3 3 Danielle Kuhn probable f 90 2023-01-01 2023-01-01
4 5 Treven Gallegos confirmed m 19 2023-01-01 2023-01-01
5 6 Lauren Nguyen suspected f 17 2023-01-01 2023-01-01
6 8 Mahdi al-Amini probable m 75 2023-01-01 2023-01-01
7 11 Brandon O'Reilly confirmed m 46 2023-01-01 2023-01-01
8 12 Selena Chun confirmed f 19 2023-01-01 2023-01-01
9 13 Royse Galvan confirmed m 75 2023-01-01 2023-01-01
10 18 Fahmi al-Masood suspected m 24 2023-01-02 2023-01-02
11 20 Kifaaya el-Ameen confirmed f 79 2023-01-02 2023-01-02
12 22 Martin Cavazos Castro probable m 39 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 <NA> recovered <NA> <NA> <NA>
2 <NA> recovered <NA> 2022-12-31 2023-01-07
3 <NA> recovered <NA> 2022-12-30 2023-01-03
4 <NA> recovered <NA> 2022-12-29 2023-01-02
5 <NA> died 2023-01-16 2022-12-27 2023-01-01
6 <NA> recovered <NA> 2022-12-28 2023-01-04
7 <NA> recovered <NA> 2022-12-28 2023-01-02
8 <NA> recovered <NA> 2022-12-29 2023-01-01
9 <NA> recovered <NA> 2022-12-28 2023-01-01
10 <NA> recovered <NA> 2022-12-30 2023-01-01
11 <NA> recovered <NA> 2022-12-29 2023-01-02
12 <NA> recovered <NA> 2022-12-30 2023-01-03
ct_value
1 25.4
2 27.6
3 NA
4 24.4
5 NA
6 NA
7 21.7
8 26.9
9 22.8
10 NA
11 26.2
12 NA
sim_linelist works as expected with modified config parameters
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(last_contact_distribution = function(x) stats::rpois(
n = x, lambda = 5)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-11
3 <NA> recovered <NA> 2022-12-31 2023-01-07
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-05
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-04
6 <NA> recovered <NA> 2022-12-28 2023-01-07
7 <NA> recovered <NA> 2022-12-30 2023-01-07
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-12
9 <NA> recovered <NA> 2022-12-29 2023-01-06
10 <NA> recovered <NA> 2022-12-29 2023-01-06
11 <NA> recovered <NA> 2022-12-31 2023-01-04
12 <NA> recovered <NA> 2022-12-27 2023-01-07
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with time-varying cfr
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
config = create_config(time_varying_death_risk = function(risk, time) risk *
exp(-time)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Kevin Pullen suspected m 1 2023-01-01 2023-01-01
2 2 Carisa Flores-Gonzalez confirmed f 29 2023-01-01 2023-01-01
3 3 Maazin el-Othman confirmed m 78 2023-01-01 2023-01-01
4 5 Faisal el-Vaziri suspected m 70 2023-01-01 2023-01-01
5 6 Lynsey Duron confirmed f 28 2023-01-01 2023-01-01
6 8 Lilibeth Black confirmed f 61 2023-01-01 2023-01-01
7 11 Kaleb Natarelli confirmed m 86 2023-01-01 2023-01-01
8 12 Collin Stimack confirmed m 71 2023-01-01 2023-01-01
9 13 Marquaja Johnson confirmed f 51 2023-01-01 2023-01-01
10 18 Corey Alcala probable m 49 2023-01-02 2023-01-02
11 20 Erin Payson suspected f 7 2023-01-02 2023-01-02
12 22 Sean Shrestha confirmed m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 died 2023-01-18 <NA> <NA>
2 2023-01-02 died 2023-02-09 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.8
3 24.9
4 NA
5 24.5
6 26.4
7 27.3
8 20.2
9 26.1
10 NA
11 NA
12 25.7
sim_linelist works as expected with time-varying cfr & age-strat
Code
sim_linelist(contact_distribution = contact_distribution, infectious_period = infectious_period,
prob_infection = 0.5, onset_to_hosp = onset_to_hosp, onset_to_death = onset_to_death,
hosp_death_risk = age_dep_hosp_death_risk, config = create_config(
time_varying_death_risk = function(risk, time) risk * exp(-time)))
Output
id case_name case_type sex age date_onset date_reporting
1 1 Wajdi al-Demian probable m 1 2023-01-01 2023-01-01
2 2 Durine Cobb confirmed f 29 2023-01-01 2023-01-01
3 3 Raaid el-Diab suspected m 78 2023-01-01 2023-01-01
4 5 Nickolas Nault confirmed m 70 2023-01-01 2023-01-01
5 6 Shanta Holiday suspected f 28 2023-01-01 2023-01-01
6 8 Mackenzie Ahn probable f 61 2023-01-01 2023-01-01
7 11 Mubarak el-Vaziri probable m 86 2023-01-01 2023-01-01
8 12 Raakaan al-Shams suspected m 71 2023-01-01 2023-01-01
9 13 Mikhaila Carlson confirmed f 51 2023-01-01 2023-01-01
10 18 Tae Woo Nguyen confirmed m 49 2023-01-02 2023-01-02
11 20 Annie Carter probable f 7 2023-01-02 2023-01-02
12 22 Thomas Morales probable m 24 2023-01-02 2023-01-02
date_admission outcome date_outcome date_first_contact date_last_contact
1 2023-01-04 recovered <NA> <NA> <NA>
2 2023-01-02 recovered <NA> 2022-12-30 2023-01-08
3 <NA> recovered <NA> 2022-12-31 2023-01-05
4 2023-01-05 recovered <NA> 2022-12-31 2023-01-04
5 2023-01-14 recovered <NA> 2022-12-29 2023-01-02
6 <NA> recovered <NA> 2022-12-28 2023-01-05
7 <NA> recovered <NA> 2022-12-30 2023-01-04
8 2023-01-02 recovered <NA> 2022-12-28 2023-01-09
9 <NA> recovered <NA> 2022-12-29 2023-01-04
10 <NA> recovered <NA> 2022-12-29 2023-01-04
11 <NA> recovered <NA> 2022-12-31 2023-01-03
12 <NA> recovered <NA> 2022-12-27 2023-01-05
ct_value
1 NA
2 25.2
3 NA
4 25.7
5 NA
6 NA
7 NA
8 NA
9 26.1
10 22.7
11 NA
12 NA
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