Package index • scicalc

Reading/Writing File Functions

File Reading Functions

read_hashed_file(): Reads a file if the supplied hash matches the file's hash

read_csv_with_hash(): Reads data from csv file and prints hash of contents.

read_file_with_hash(): Reads the data from a file (csv or parquet) and prints the hash

read_parquet_with_hash(): Reads data from parquet file and prints hash of contents.

read_pzfx_with_hash(): Reads in table from a prism pzfx file.

read_sas_with_hash(): Reads data from sas file and prints hash of contents.

read_xpt_with_hash(): Reads data from xpt file and prints hash of contents.

read_excel_with_hash(): Reads data from xlsx/xls file and prints hash of contents.

File Writing Functions

write_csv_with_hash(): Writes data to csv_path with na_value replacing NA values.

write_file_with_hash(): Writes data to path, if directory doesn't exist it is created before file is written

write_parquet_with_hash(): Writes data to parquet_path and prints hash

Data Manipulation

Demographic Manipulations

is_white(): Takes character input and returns TRUE/FALSE if white/other

is_black(): Takes character input and returns TRUE/FALSE if black/other also checks for "African American" and "Black or African American"

is_asian(): Takes character input and returns TRUE/FALSE if asian/other

is_other(): Takes character input and returns TRUE/FALSE if other/explicit race

racen(): Takes character input and returns standard yspec numeric value for Race

is_hispanic_or_latino(): Takes character input and returns TRUE/FALSE if "Hispanic or Latino" or other

is_not_hispanic_or_latino(): Takes character input and returns TRUE/FALSE if "Not Hispanic or Latino" or other

ethnicn(): Takes character input and returns standard yspec numeric value for Ethnic

sexf(): Takes character input and returns standard yspec numeric value for Sex.

is_female(): Takes character input and returns TRUE/FALSE if female/male

Vitals Functions

bbmi(): Calculates Baseline Body Mass Index based on Weight and Height

bsa(): Calculates Body Surface Area based on Weight and Height using the method specified. Default is Dubois.

dubois_bsa(): Calculates Body Surface Area based on Weight and Height using Dubois Dubois equation

mosteller_bsa(): Calculates Body Surface Area based on Weight and Height using Mosteller equation

crcl(): Calculates Creatinine clearance with Cockcroft-Gault equation

brfc(): Calculates renal impairment categories based on CrCL

bhfc(): Calculates hepatic function criteria

egfr(): Calculates eGFR based on the method specified

ckdepi_2009_egfr(): Calculates Estimated Glomerular Filtration Rate based on Sex, Race, Age, and Creatinine levels based on the CKDEPI 2009 equation

ckdepi_2021_egfr(): Calculates eGFR using the CKDEPI 2021 creatinine equation

ckdepi_2021_egfr_cystatin(): Calculates eGFR with CKDEPI 2021 cystatin equation

mdrd_egfr(): Modification of Diet in Renal Disease eGFR calculation

schwartz_egfr(): Calculates eGFR based on Schwartz' equation

Statistical Functions

cv(): Computes the coefficient of variation of input vector.

geom_cv(): Computes the geometric CV of a vector x

geom_mean(): Computes the geometric mean of a vector.

geom_sd(): Computes the geometric standard deviation of a vector x.

categorize(): Converts continuous variable into factor categories.

Unit Checks

check_for_unique_units(): Gives a TRUE/FALSE for if the Parameters have only 1 associated unit

get_unique_units_df(): Creates a dataframe with distinct parameters and units combinations

create_dir(): Creates the directory if it doesn't exist