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an_covidvsnoncovid_agesex_GENERAL.do
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an_covidvsnoncovid_agesex_GENERAL.do
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if "`1'"=="MAIN" | "`1'"=="SEPT2020" {
local check "assert onsdeath>=1 & onsdeath<. if _d==1"
local genoutput1 "gen coviddeath = onsdeath==1"
local genoutput2 "gen noncoviddeath = onsdeath>1 & onsdeath<."
local taboutput1 "tab noncoviddeath"
local taboutput2 "tab coviddeath"
local outcomes "coviddeath noncoviddeath"
}
if "`1'"=="2019"{
local check "assert stime_primarycaredeath>d(1/2/2019) if primarycaredeath==1"
local outcomes "primarycaredeath"
}
cap log close
log using ./analysis/output/an_covidvsnoncovid_agesex_`1'`2', replace t
use ./analysis/cr_create_analysis_dataset_`1'_STSET.dta, clear
`check'
`genoutput1'
`genoutput2'
if "`2'"=="SA_anywhereonDC"{
replace coviddeath = 1 if onsdeath>=1 & onsdeath<. & died_ons_covid_flag_any==1
replace noncoviddeath = 0 if died_ons_covid_flag_any==1
}
if "`2'"=="SA_u071only"{
replace coviddeath = 0 if died_ons_covidconf_flag_und!=1
replace noncoviddeath = 1 if onsdeath>=1 & onsdeath<. & died_ons_covidconf_flag_und!=1
}
if "`2'"=="SA_censorendAug"{
replace coviddeath = 0 if coviddeath==1 & stime_onsdeath>d(1/9/2020)
replace noncoviddeath = 0 if noncoviddeath==1 & stime_onsdeath>d(1/9/2020)
}
gen obese4catCC = obese4cat
replace obese4catCC = . if bmicat==.
foreach outcome of local outcomes{
tab `outcome'
}
foreach outcome of local outcomes {
foreach addvariable of any asthmacat ///
cancer_exhaem_cat ///
cancer_haem_cat ///
chronic_cardiac_disease ///
reduced_kidney_function_cat2 ///
dialysis ///
chronic_liver_disease ///
chronic_respiratory_disease ///
diabcat ///
ethnicity ///
htdiag_or_highbp ///
bpcat ///
hypertension ///
imd ///
obese4cat ///
obese4catCC ///
organ_transplant ///
other_immunosuppression ///
other_neuro ///
ra_sle_psoriasis ///
smoke ///
smoke_nomiss ///
spleen ///
stroke ///
dementia {
cap logistic `outcome' age1 age2 age3 male i.stp i.`addvariable'
if _rc==0{
estimates
estimates save ./analysis/output/models/an_covidvsnoncovid_agesex_`1'`2'_`outcome'_`addvariable', replace
}
else di "MODEL DID NOT FIT (adding `addvariable')"
}
cap logistic `outcome' age1 age2 age3 i.male i.stp
if _rc==0{
estimates
estimates save ./analysis/output/models/an_covidvsnoncovid_agesex_`1'`2'_`outcome'_MALE, replace
}
cap logistic `outcome' ib3.agegroup i.male i.stp
if _rc==0{
estimates
estimates save ./analysis/output/models/an_covidvsnoncovid_agesex_`1'`2'_`outcome'_AGEGROUP, replace
}
}
log close