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AL002_tabulate_cohort_descriptives.do
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AL002_tabulate_cohort_descriptives.do
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********************************************************************************
*
* Do-file: AL002_tabulate_cohort_descriptives.do
*
* Programmed by: Fizz (based on Krishnan's files)
*
* Data used: analysis/data_ldanalysis_cohort1.dta
* i=1 (Wave 1, 1 Mar 2020 - 31 Aug 2020)
* i=2 (Wave 2, 1 Sept 2020)
*
* Data created: None
*
* Other output: Table: output/basetable1.txt
* Log file: logs/AL002_tabulate_cohort_descriptives.log
*
********************************************************************************
*
* Purpose: This do-file describes the data in the base cohort and
* puts the output in a log file.
*
*********************************************************************************
* Open a log file
cap log close
log using "logs/AL002_tabulate_cohort_descriptives", text replace
* Add ado files
adopath++ `c(pwd)'\analysis
*************************************************
* Program: generaterow *
* *
* Generic code to output one row of table *
*************************************************
cap prog drop generaterow
program define generaterow
syntax, variable(varname) binexp(varname) condition(string) file(string)
* Counts among exposed
safecount if `binexp'==1
local expdenom = r(N)
safecount if `variable' `condition' & `binexp'==1
file write `file' ("`variable'") _tab ("`condition'") _tab (r(N)) (" (") %2.0f (100*(r(N))/`expdenom') (")") _tab
* Counts among unexposed
safecount if `binexp'==0
local unexpdenom = r(N)
safecount if `variable' `condition' & `binexp'==0
file write `file' (r(N)) (" (") %2.0f (100*(r(N))/`unexpdenom') (")") _n
end
*************************************************
* Program: tabulatevariable *
* *
* Generic code to output one section *
* (variable) within table *
*************************************************
cap prog drop tabulatevariable
prog define tabulatevariable
syntax, variable(varname) binexp(varname) ///
start(real) end(real) [missing] file(string)
foreach varlevel of numlist `start'/`end'{
generaterow, variable(`variable') binexp(`binexp') ///
condition("==`varlevel'") file(`file')
}
if "`missing'"!="" generaterow, ///
variable(`variable') binexp(`binexp') ///
condition(">=.") file(`file')
end
*************************
* Create table output *
*************************
cap file close tablecontent
file open tablecontent using "output/basetable1.txt", write text replace
/* Open cohort and extract covariates */
use "analysis/data_ldanalysis_cohort1.dta", clear
* Complete case for ethnicity
drop if ethnicity_5>=.
/* Table: Demographic variables */
gen byte cons=1
tabulatevariable, variable(cons) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(agegroup) start(1) end(7) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(male) start(0) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(ethnicity_5) start(1) end(5) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(region_7) start(1) end(7) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(imd) start(1) end(5) file(tablecontent) binexp(ldr)
file write tablecontent _n
/* Table: Learning disability */
tabulatevariable, variable(ld_profound) start(0) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(resid_care_ldr) start(0) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(ds) start(0) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(cp) start(0) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
/* Table: Comorbidities */
tabulatevariable, variable(asthma_severe) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(cf) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(respiratory) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(cardiac) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(af) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(dvt_pe) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(diabcat) start(2) end(4) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(liver) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(stroke) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(tia) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(dementia) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(kidneyfn) start(2) end(3) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(spleen) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(transplant) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(immunosuppression) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(cancerHaem) start(2) end(3) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(cancerExhaem1yr) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(autoimmune) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(ibd) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(smi) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
tabulatevariable, variable(neuro) start(1) end(1) file(tablecontent) binexp(ldr)
file write tablecontent _n
file close tablecontent
* Close log
log close