Man pages for dylanrussellmd/nsqipr
Interact with NSQIP data via R
| addmissingcolumns | Add missing columns |
| bmi | Calculate BMI |
| checkAnyDead | Check if any trues exist row-wise in a logical matrix. |
| checkAnyTrue | Check if any trues exist row-wise in a logical matrix. |
| check_comaneurograft | Remove coma, neuro deficit, and graft columns after 2010 |
| check_if_in | Check if columns in data frame |
| checkTrue | Check if a boolean is TRUE and not NA |
| coalesce | Coalesce two vector |
| coalesce_cols | Coalesce two columns |
| collect_column_names | Collect all column names |
| colorder | Set data table columns to a specified order |
| conv_ | Apply a given function to specified columns in a data table |
| conv_aaa_cols | Convert targeted abdominal aortic aneurysm columns |
| conv_aaa_iculos | Convert targeted AAA ICU length of stay to integer |
| conv_age | Convert age to integer |
| conv_aie_cols | Convert targeted aortoiliac endo columns |
| conv_aio_cols | Convert targeted aortoiliac open columns |
| conv_app_abscess | Parse entries that indicate an abscess |
| conv_app_cols | Convert targeted appendectomy columns |
| conv_app_img_ct | Parse entries that indicate a CT was performed |
| conv_app_img_mri | Parse entries that indicate an MRI was performed |
| conv_app_img_ultra | Parse entries that indicate an ultrasound was performed |
| conv_app_intraabscess | Parse entries that indicate an post-operative intraabdominal... |
| conv_app_intraabscess_intervention | Parse a column for type of intra-abdominal abscess... |
| conv_app_perforation | Parse entries that indicate a perforation |
| conv_col_anastomotic | Parse entries that indicate the presence of an anastomotic... |
| conv_col_cols | Convert targeted colectomy columns |
| conv_col_leak_treatment | Parse a column for type of anastomotic leak intervention |
| conv_complication | Convert complication columns to logicals |
| conv_date | Converts a single year to a date |
| convert_col_to_integer | Convert a column to integers |
| conv_factor | Convert factor columns |
| conv_hep_bileleakage | Parse entries that indicate the presence of a bile leak |
| conv_hep_bileleakage_intervention | Parse a column for type of bile leak intervention |
| conv_hep_bileleakage_type | Parse a column for type of bile leakage |
| conv_hep_cols | Convert targeted hepatectomy columns |
| conv_hep_con_partres | Convert concurrent partial resections to integer |
| conv_hep_hepb | Parse entries that indicate a Hepatitis B infection |
| conv_hep_hepc | Parse entries that indicate a Hepatitis C infection |
| conv_hep_liverfail | Parse entries that indicate the presence of liver failure |
| conv_hep_liverfail_type | Parse a column for type of liver failure |
| conv_hep_otherviral | Parse entries that indicate a non-Hepatitis viral infection |
| conv_hep_sec_numtumors | Convert number of secondary tumors to integer |
| conv_hispanic | Add or update Hispanic ethnicity column |
| conv_inout | Convert inout to logical |
| conv_notno | Convert "no" columns to logicals |
| conv_numscale | Extract number scale from vector |
| conv_open_assist | Parse entries with open assist or hand assist |
| conv_pan_cols | Convert targeted pancreatectomy columns |
| conv_pan_delgastric | Parse a column for type of delayed gastric emptying treatment |
| conv_pan_fistula | Parse entries that indicate the presence of a fistula |
| conv_pan_fistula_intervention | Parse a column for type of fistula intervention |
| conv_pan_fistula_type | Parse a column for type of fistula |
| conv_puf_cols | Convert ACS NSQIP PUF columns |
| conv_race | Convert race to factor |
| conv_to_standard | The top level data cleaning function |
| conv_unplanned_conversion | Parse entries with unplanned conversion to open |
| conv_yesno | Convert yes/no columns to logicals |
| create_dirs | Creates directories from a vector of desired directory names.... |
| dindo | Classifies a patient according to the Dindo-Clavien surgical... |
| extract_number_from_column | Extract number from value |
| factorpipe | Factor pipe |
| get_file_or_dir | Check if a path is a directory or a file |
| get_pufyear | Add a PUF year column |
| grapes-qsin-grapes | Quick Search |
| insulin | Parse a column for insulin usage |
| isDead | Check if a patient has died within 30 days of the index... |
| isFullDT | Check if a data table is full |
| make_amylase_long | Convert amylase columns from wide to long format |
| make_anesthes_other_long | Convert anesthes_other column from wide to long format |
| make_cols_long | Convert columns to a wide format |
| make_commas_long | Convert comma-separated columns to a wide format |
| make_cpt_long | Convert CPT, Procedure Name, and WRVU from wide to long... |
| make_hep_con_ablation_long | Convert hep_con_ablation_140101 column from wide to long... |
| make_hep_invasive_type_long | Convert hep_invasive_type column from wide to long format |
| make_hep_neotherapy_long | Convert hep_neotherapy_140101 column from wide to long format |
| make_long_cols | Create multiple columns from comma-separated column |
| make_pan_percdrainage_cols | Create percutaneous drainage columns for long conversion |
| make_pan_percdrainage_long | Convert pan_percdrainage column from wide to long format |
| make_readm_long | Convert readmission columns from wide to long format |
| make_reop_long | Convert reoperation columns from wide to long format |
| move_files | Moves files from a parent directory to newly created... |
| nsqip | Clean NSQIP data |
| nsqip_dir | Runs the 'nsqip' function in a single directory. |
| nsqipr | nsqipr: A cleaner NSQIP. |
| parse_filename | Parses a file name and returns a lower-case string of the... |
| parse_files | Parses a directory of files and creates the requisite... |
| pb | Create a progress bar |
| remove_undesired | Remove undesired columns from a data table |
| setlowernames | Convert column names to lower case |
| tick | Increment a progress bar |
| type_prsepis | Parse a column for type of sepsis |
| when_dyspnea | Parse a column for type of dyspnea |
