Nothing
tests/testthat/_snaps/summarize_coxreg.md
In tern: Create Common TLGs Used in Clinical Trials
s_coxreg converts tabulated results in a list
Code
res
Output
$hr
$hr$`2 vs control (1)`
[1] 0.6386426
$hr
$hr$`A Covariate Label`
[1] 0.607037
$hr
$hr$`Sex (F/M)`
[1] 0.6242738
s_coxreg works with which_vars and var_nms arguments
Code
res
Output
$hr
$hr$` F`
[1] 0.6678243
$hr$` M`
[1] 0.5954021
s_coxreg works with character covariates in the univariate case when interaction = TRUE
Code
res
Output
$hr
$hr$`2 vs control (1)`
[1] 0.6386426
$hr
$hr$`A Covariate Label`
numeric(0)
$hr$` 1`
[1] 0.6284569
$hr$` 2`
[1] 0.5806499
$hr$` 3`
[1] 0.5486103
$hr$` 4`
[1] 0.6910725
$hr
$hr$`Sex (F/M)`
numeric(0)
$hr$` F`
[1] 0.6678243
$hr$` M`
[1] 0.5954021
a_coxreg works as expected
Code
res
Output
RowsVerticalSection (in_rows) object print method:
----------------------------
row_name formatted_cell indent_mod row_label
1 Label 1 340 0 Label 1
summarize_coxreg adds the univariate Cox regression layer to rtables
Code
res
Output
n Hazard Ratio 90% CI p-value
—————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.46, 0.89) 0.0253
Covariate:
A Covariate Label 340 0.61 (0.44, 0.85) 0.0136
Sex (F/M) 340 0.63 (0.45, 0.87) 0.0191
Code
res
Output
n Hazard Ratio 95% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
First Covariate 340 0.61 (0.41, 0.90) 0.0126
Second Covariate 340 0.62 (0.42, 0.92) 0.0182
Code
res
Output
n Hazard Ratio 90% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.46, 0.89) 0.0253
Covariate:
COVAR1 340 0.61 (0.44, 0.85) 0.0136
COVAR2 340 0.63 (0.45, 0.87) 0.0191
summarize_coxreg .section_div argument works
Code
res
Output
n Hazard Ratio 95% CI p-value
—————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
_________________________________________________________________
Covariate:
A Covariate Label 340 0.61 (0.41, 0.90) 0.0126
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
Sex (F/M) 340 0.62 (0.42, 0.92) 0.0182
summarize_coxreg works with interactions in univariate case
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
———————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
Age 340 0.1757
40 0.62 (0.42, 0.93)
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14)
2 0.58 (0.27, 1.26)
3 0.55 (0.22, 1.35)
4 0.69 (0.23, 2.07)
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg 'at' argument works in univariate case
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
——————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
Age 340 0.1757
15 0.35 (0.13, 0.92)
30 0.49 (0.29, 0.86)
60 0.98 (0.47, 2.04)
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg na_str argument works
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
———————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242 ---
Covariate:
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14) ---
2 0.58 (0.27, 1.26) ---
3 0.55 (0.22, 1.35) ---
4 0.69 (0.23, 2.07) ---
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22) ---
M 0.60 (0.36, 0.99) ---
summarize_coxreg works without treatment arm in univariate case
Code
res
Output
Hazard Ratio 90% CI p-value
———————————————————————————————————————————————————————————————————————————
Covariate:
A Covariate Label (reference = 1) <0.0001
2 0.45 (0.30, 0.66) 0.0007
3 0.31 (0.20, 0.48) <0.0001
4 0.18 (0.11, 0.30) <0.0001
Sex (F/M) (reference = F)
M 1.33 (0.97, 1.82) 0.1414
summarize_coxreg works with numeric covariate without treatment arm in univariate case
Code
res
Output
Hazard Ratio 90% CI p-value
———————————————————————————————————————————————————————————————————————————
Covariate:
A Covariate Label (reference = 1) <0.0001
2 0.45 (0.30, 0.66) 0.0007
3 0.31 (0.20, 0.48) <0.0001
4 0.18 (0.11, 0.30) <0.0001
Age
All 1.01 (1.00, 1.02) 0.2486
summarize_coxreg works with character covariate in univariate case when interaction = TRUE
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
————————————————————————————————————————————————————————————————————————————————————————————————
Treatment:
ARM: 2 vs control (ARM: 1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
COVAR2 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
————————————————————————————————————————————————————————————————————————————————————————————————
Treatment:
ARM: 2 vs control (ARM: 1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14)
2 0.58 (0.27, 1.26)
3 0.55 (0.22, 1.35)
4 0.69 (0.23, 2.07)
COVAR2 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg adds the multivariate Cox regression layer to rtables
Code
res
Output
Hazard Ratio 95% CI p-value
———————————————————————————————————————————————————————————————————————————
Treatment:
ARM (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
Age
All 1.01 (0.99, 1.03) 0.2097
A Covariate Label (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
Sex (F/M) (reference = F)
M 1.31 (0.89, 1.92) 0.1665
Code
res
Output
Hazard Ratio 95% CI p-value
——————————————————————————————————————————————————————————————————————————
Treatment:
ARM (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
Age Covariate
All 1.01 (0.99, 1.03) 0.2097
First Covariate (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
Second Covariate (reference = F)
M 1.31 (0.89, 1.92) 0.1665
Code
res
Output
Hazard Ratio 95% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
ARMCD (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
AGE
All 1.01 (0.99, 1.03) 0.2097
COVAR1 (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
COVAR2 (reference = F)
M 1.31 (0.89, 1.92) 0.1665
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s_coxreg converts tabulated results in a list
Code
res
Output
$hr
$hr$`2 vs control (1)`
[1] 0.6386426
$hr
$hr$`A Covariate Label`
[1] 0.607037
$hr
$hr$`Sex (F/M)`
[1] 0.6242738
s_coxreg works with which_vars and var_nms arguments
Code
res
Output
$hr
$hr$` F`
[1] 0.6678243
$hr$` M`
[1] 0.5954021
s_coxreg works with character covariates in the univariate case when interaction = TRUE
Code
res
Output
$hr
$hr$`2 vs control (1)`
[1] 0.6386426
$hr
$hr$`A Covariate Label`
numeric(0)
$hr$` 1`
[1] 0.6284569
$hr$` 2`
[1] 0.5806499
$hr$` 3`
[1] 0.5486103
$hr$` 4`
[1] 0.6910725
$hr
$hr$`Sex (F/M)`
numeric(0)
$hr$` F`
[1] 0.6678243
$hr$` M`
[1] 0.5954021
a_coxreg works as expected
Code
res
Output
RowsVerticalSection (in_rows) object print method:
----------------------------
row_name formatted_cell indent_mod row_label
1 Label 1 340 0 Label 1
summarize_coxreg adds the univariate Cox regression layer to rtables
Code
res
Output
n Hazard Ratio 90% CI p-value
—————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.46, 0.89) 0.0253
Covariate:
A Covariate Label 340 0.61 (0.44, 0.85) 0.0136
Sex (F/M) 340 0.63 (0.45, 0.87) 0.0191
Code
res
Output
n Hazard Ratio 95% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
First Covariate 340 0.61 (0.41, 0.90) 0.0126
Second Covariate 340 0.62 (0.42, 0.92) 0.0182
Code
res
Output
n Hazard Ratio 90% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.46, 0.89) 0.0253
Covariate:
COVAR1 340 0.61 (0.44, 0.85) 0.0136
COVAR2 340 0.63 (0.45, 0.87) 0.0191
summarize_coxreg .section_div argument works
Code
res
Output
n Hazard Ratio 95% CI p-value
—————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
_________________________________________________________________
Covariate:
A Covariate Label 340 0.61 (0.41, 0.90) 0.0126
* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
Sex (F/M) 340 0.62 (0.42, 0.92) 0.0182
summarize_coxreg works with interactions in univariate case
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
———————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
Age 340 0.1757
40 0.62 (0.42, 0.93)
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14)
2 0.58 (0.27, 1.26)
3 0.55 (0.22, 1.35)
4 0.69 (0.23, 2.07)
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg 'at' argument works in univariate case
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
——————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
Age 340 0.1757
15 0.35 (0.13, 0.92)
30 0.49 (0.29, 0.86)
60 0.98 (0.47, 2.04)
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg na_str argument works
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
———————————————————————————————————————————————————————————————————————————————————————
Treatment:
2 vs control (1) 340 0.64 (0.43, 0.94) 0.0242 ---
Covariate:
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14) ---
2 0.58 (0.27, 1.26) ---
3 0.55 (0.22, 1.35) ---
4 0.69 (0.23, 2.07) ---
Sex (F/M) 340 0.7759
F 0.67 (0.36, 1.22) ---
M 0.60 (0.36, 0.99) ---
summarize_coxreg works without treatment arm in univariate case
Code
res
Output
Hazard Ratio 90% CI p-value
———————————————————————————————————————————————————————————————————————————
Covariate:
A Covariate Label (reference = 1) <0.0001
2 0.45 (0.30, 0.66) 0.0007
3 0.31 (0.20, 0.48) <0.0001
4 0.18 (0.11, 0.30) <0.0001
Sex (F/M) (reference = F)
M 1.33 (0.97, 1.82) 0.1414
summarize_coxreg works with numeric covariate without treatment arm in univariate case
Code
res
Output
Hazard Ratio 90% CI p-value
———————————————————————————————————————————————————————————————————————————
Covariate:
A Covariate Label (reference = 1) <0.0001
2 0.45 (0.30, 0.66) 0.0007
3 0.31 (0.20, 0.48) <0.0001
4 0.18 (0.11, 0.30) <0.0001
Age
All 1.01 (1.00, 1.02) 0.2486
summarize_coxreg works with character covariate in univariate case when interaction = TRUE
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
————————————————————————————————————————————————————————————————————————————————————————————————
Treatment:
ARM: 2 vs control (ARM: 1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
COVAR2 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
Code
res
Output
n Hazard Ratio 95% CI p-value Interaction p-value
————————————————————————————————————————————————————————————————————————————————————————————————
Treatment:
ARM: 2 vs control (ARM: 1) 340 0.64 (0.43, 0.94) 0.0242
Covariate:
A Covariate Label 340 0.9883
1 0.63 (0.35, 1.14)
2 0.58 (0.27, 1.26)
3 0.55 (0.22, 1.35)
4 0.69 (0.23, 2.07)
COVAR2 340 0.7759
F 0.67 (0.36, 1.22)
M 0.60 (0.36, 0.99)
summarize_coxreg adds the multivariate Cox regression layer to rtables
Code
res
Output
Hazard Ratio 95% CI p-value
———————————————————————————————————————————————————————————————————————————
Treatment:
ARM (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
Age
All 1.01 (0.99, 1.03) 0.2097
A Covariate Label (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
Sex (F/M) (reference = F)
M 1.31 (0.89, 1.92) 0.1665
Code
res
Output
Hazard Ratio 95% CI p-value
——————————————————————————————————————————————————————————————————————————
Treatment:
ARM (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
Age Covariate
All 1.01 (0.99, 1.03) 0.2097
First Covariate (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
Second Covariate (reference = F)
M 1.31 (0.89, 1.92) 0.1665
Code
res
Output
Hazard Ratio 95% CI p-value
————————————————————————————————————————————————————————————————
Treatment:
ARMCD (reference = 1)
2 0.60 (0.40, 0.88) 0.0100
Covariate:
AGE
All 1.01 (0.99, 1.03) 0.2097
COVAR1 (reference = 1) <0.0001
2 0.47 (0.29, 0.75) 0.0017
3 0.31 (0.18, 0.51) <0.0001
4 0.18 (0.10, 0.33) <0.0001
COVAR2 (reference = F)
M 1.31 (0.89, 1.92) 0.1665
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