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358 lines
14 KiB
Plaintext
358 lines
14 KiB
Plaintext
*! Version 5 5March2016
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************************************************************************************************************
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* Traces: Traces of items
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* Version 5: March 5, 2016 /*numerical items*/
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*
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* Historic:
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* Version 1 (2003-06-29): Jean-Benoit Hardouin
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* Version 2 (2003-07-04): Jean-Benoit Hardouin
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* version 3 (2003-07-09): Jean-Benoit Hardouin
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* Version 3.1 (2005-06-07): Jean-Benoit Hardouin /*small modifications*/
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* Version 3.2: May 27, 2007 /*onlyone option*/
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* Version 3.3: October 16, 2012 /*minor modifications*/
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* Version 4: January 22, 2015 /*ICC*/
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*
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* Jean-benoit Hardouin, phD, Assistant Professor
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* EA4275-SPHERE "MethodS in Patients-centered outcomes and HEalth ResEarches"
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* University of Nantes - Faculty of Pharmaceutical Sciences
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* France
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* jean-benoit.hardouin@anaqol.org
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*
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* News about this program :http://www.anaqol.org
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* FreeIRT Project website : http://www.freeirt.org
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*
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* Copyright 2003, 2005, 2007, 2012, 2015, 2016 Jean-Benoit Hardouin
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*
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* This program is free software; you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation; either version 2 of the License, or
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* (at your option) any later version.
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*
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* This program is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with this program; if not, write to the Free Software
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* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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*
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************************************************************************************************************
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program define traces, rclass
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version 8.0
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syntax varlist(numeric min=2) [, COMPare(varlist min=2 max=2) ICC SAVeicc noGraph Score Test Restscore Logistic CI CUMulative REPFiles(string) SCOREFiles(string) RESTSCOREFiles(string) LOGISTICFile(string) noDraw noDRAWComb REPlace ONLYone(string) THResholds(string) Black]
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local nbitems : word count `varlist'
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tokenize `varlist'
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if "`onlyone'"!=""&"`drawcomb'"!="" {
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local drawcomb
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}
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tempvar varscore
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qui gen `varscore'=0
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label variable `varscore' "Total score"
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local scoremax=0
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local flag=0
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if "`score'"==""&"`restscore'"==""&&"`logistic'"=="" {
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local score="score"
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}
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local modamax=-999
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local modamin=999
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forvalues i=1/`nbitems' {
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qui replace `varscore'=`varscore'+``i''
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qui su ``i''
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local modamax`i'=r(max)
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local modamin`i'=r(min)
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if r(min)!=0 {
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local flag=1
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}
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local scoremax=`scoremax'+`modamax`i''
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if `modamax`i''!=1 {
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local flagbin=0
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}
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if `modamax`i''>`modamax' {
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local modamax=`modamax`i''
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}
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if `modamin`i''<`modamin' {
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local modamin=`modamin`i''
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}
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}
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/*
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if `flag'==1 {
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di as error "The lower modality of the item must be 0"
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exit
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}
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*/
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if "`flagbin'"!=""&"`logistic'"!="" {
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di as error "The logistic option is not possible with polytomous items"
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exit
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}
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qui su `varscore'
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local maxscore=r(max)
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local minscore=r(min)
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forvalues i=`minscore'/`maxscore' {
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qui count if `varscore'>`=`i'-0.5'&`varscore'<=`=`i'+0.5'
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local nscore`i'=r(N)
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}
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global score
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global restscore
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global logistic
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qui count
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local N=r(N)
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if `c(matsize)'<`N'&"`saveicc'"!="" {
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set matsize `N'
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}
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if "`score'"!="" {
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if "`thresholds'"!="" {
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* set trace on
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local nbth:word count `thresholds'
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forvalues t=1/`nbth' {
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local th`t':word `t' of `thresholds'
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}
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tempname label
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local recode min/`th1'=1 `=`th`nbth''+1'/max=`=`nbth'+1'
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qui label define `label' 1 "min/`th1'",add
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qui label define `label' `=`nbth'+1' "`=`th`nbth''+1'/max",add
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forvalues j=2/`nbth' {
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local recode `recode' `=`th`=`j'-1''+1'/`th`j''=`j'
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qui label define `label' `j' "`=`th`=`j'-1''+1'/`th`j''",add
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}
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tempname varscore2
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qui gen `varscore2'=`varscore'
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qui recode `varscore' `recode'
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qui label values `varscore' `label'
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local nbgroups=`nbth'+1
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local minimum=1
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}
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else {
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local nbgroups=`maxscore'
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local minimum=0
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}
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local listicc
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forvalues i=1/`nbitems' {
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local y`i'
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tempvar icc``i''
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gen `icc``i'''=0
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local listicc `listicc' `icc``i'''
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local l=0
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forvalues k=`=`modamin`i''+1'/`modamax`i'' {
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tempvar propscore`i'`l' tmp
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if "`cumulative'"!="" {
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qui gen `tmp'=``i''>=`k'&``i''!=.
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bysort `varscore' : egen `propscore`i'`l''=mean(`tmp')
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label variable `propscore`i'`l'' "Item ``i''>=`k'"
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}
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else {
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qui gen `tmp'=``i''==`k'&``i''!=.
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bysort `varscore' : egen `propscore`i'`l''=mean(`tmp')
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label variable `propscore`i'`l'' "Item ``i''=`k'"
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*di "replace icc``i''=icc``i''+`k'*`propscore`i'`k''"
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qui replace `icc``i'''=`icc``i'''+`k'*`propscore`i'`l''
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}
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local y`i'="`y`i'' `propscore`i'`l''"
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local style="solid"
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local color="black"
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local width="medthick"
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if `modamax`i''==1&"`ci'"!="" {
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tempvar icscoreminus icscoreplus
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forvalues m=1/`maxscore' {
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qui count if `varscore'==`m'
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local nscore`m'=r(N)
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}
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qui gen `icscoreminus'=`propscore`i'1'-1.96*sqrt(`propscore`i'1'*(1-`propscore`i'1')/`nscore1')
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qui gen `icscoreplus'=`propscore`i'1'+1.96*sqrt(`propscore`i'1'*(1-`propscore`i'1')/`nscore1')
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label variable `icscoreminus' "Lower 95% confidence interval"
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label variable `icscoreplus' "Upper 95% confidence interval"
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local y`i'="`icscoreminus' `icscoreplus' `propscore`i'1'"
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local style="dash dash solid"
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local color="red red black"
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local width="thin thin medthick"
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}
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if `modamax`i''==1&"`test'"!="" {
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qui regress `propscore`i'1' `varscore'
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local p=Fden(e(df_m),e(df_r),e(F))
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if `p'<0.0001 {
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local note="Test: slope=0, p<0.0001"
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}
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else {
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local p=substr("`p'",1,6)
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local note="Test: slope=0, p=`p'"
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}
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}
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local ++l
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}
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if ("``i''"=="`onlyone'"|"`onlyone'"=="")&"`graph'"=="" {
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qui graph twoway (line `y`i'' `varscore', clpattern(`style') clcolor(`color') clwidth(`width')) if `varscore'!=0&`varscore'!=`maxscore' , note("`note'") ylabel(0(.25)1) xlabel(`minimum'(1)`nbgroups',valuelabel) name(score`i',replace) title("Trace of the item ``i'' as a function of the score") ytitle("Rate of positive response") `draw' /*areastyle(none)*/
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}
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if ("``i''"=="`onlyone'"|"`onlyone'"=="")&"`icc'"!=""&"`graph'"==""{
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qui graph twoway (line `icc``i''' `varscore', clpattern(`style') clcolor(`color') clwidth(`width')) if `varscore'!=0&`varscore'!=`maxscore' , ylabel(0(.5)`modamax`i'') xlabel(`minimum'(1)`nbgroups',valuelabel) name(icc`i',replace) title("Approximate ICC of the item ``i'' as a function of the score") ytitle("Mean response") `draw' /*areastyle(none)*/
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}
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global score "$score score`i'"
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if "`scorefiles'"!="" {
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graph save score`i' `repfiles'\\`scorefiles'``i'' ,`replace'
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}
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}
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if "`saveicc'"!="" {
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local listicc `listicc' `varscore'
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tempname matscore
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mkmat `listicc',matrix(`matscore')
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}
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if "`thresholds'"!="" {
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qui replace `varscore'=`varscore2'
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}
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}
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if "`compare'"!=""&"`nograph'"!="" {
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local tmp1 : word 1 of `compare'
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local tmp2 : word 2 of `compare'
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di "compare `compare' tmp1 `tmp1' tmp2 `tmp2'"
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label variable `icc`tmp1'' `tmp1'
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label variable `icc`tmp2'' `tmp2'
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di "qui graph twoway (line `icc`tmp1'' `varscore', clpattern(`style') clcolor(`color') clwidth(`width')) (line `icc`tmp2'' `varscore', clpattern(`style') clcolor(`color') clwidth(`width')) if `varscore'!=0&`varscore'!=`maxscore' , ylabel(0(.5)`modamax') xlabel(`minimum'(1)`nbgroups',valuelabel) name(score`i',replace) title(Comparison of the ICC of the items `tmp1' and `tmp2') `draw' /*areastyle(none)*/"
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qui graph twoway (line `icc`tmp1'' `varscore', clpattern(`style') clcolor(blue red) clwidth(`width')) (line `icc`tmp2'' `varscore', clpattern(`style') clcolor(`color') clwidth(`width')) if `varscore'!=0&`varscore'!=`maxscore' , ylabel(0(.5)`modamax') xlabel(`minimum'(1)`nbgroups',valuelabel) /*name(score`i',replace)*/ title("Comparison of the ICC of the items `tmp1' and `tmp2'") ytitle("Mean response") /*areastyle(none)*/
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}
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if "`restscore'"!="" {
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forvalues i=1/`nbitems' {
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local y`i'
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tempvar restscore`i'
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qui gen `restscore`i''=`varscore'-``i''
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label variable `restscore`i'' "Rest score with respect to the item ``i''"
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if "`thresholds'"!="" {
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* set trace on
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local nbth:word count `thresholds'
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forvalues t=1/`nbth' {
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local th`t':word `t' of `thresholds'
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}
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tempname label
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local recode 0/`th1'=1 `=`th`nbth''+1'/max=`=`nbth'+1'
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qui label define `label' 1 "min/`th1'",add
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qui label define `label' `=`nbth'+1' "`=`th`nbth''+1'/max",add
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forvalues j=2/`nbth' {
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local recode `recode' `=`th`=`j'-1''+1'/`th`j''=`j'
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qui label define `label' `j' "`=`th`=`j'-1''+1'/`th`j''",add
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}
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*di "recode `restscore`i'' `recode'"
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qui recode `restscore`i'' `recode'
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qui label values `restscore`i'' `label'
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local nbgroups=`nbth'+1
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local minimum=1
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}
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else {
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local nbgroups=`maxscore'
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local minimum=0
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}
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forvalues k=1/`modamax`i'' {
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tempvar rtmp proprestscore`i'`k'
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if "`cumulative'"!="" {
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qui gen `rtmp'=``i''>=`k'&``i''!=.
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bysort `restscore`i'': egen `proprestscore`i'`k''=mean(`rtmp')
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label variable `proprestscore`i'`k'' "Item ``i''>=`k'"
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}
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else {
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qui gen `rtmp'=``i''==`k'&``i''!=.
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bysort `restscore`i'': egen `proprestscore`i'`k''=mean(`rtmp')
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label variable `proprestscore`i'`k'' "Item ``i''=`k'"
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}
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local y`i'="`y`i'' `proprestscore`i'`k''"
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local style="solid"
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local color="black"
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local width="medthick"
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if `modamax`i''==1&"`ci'"!="" {
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tempvar icrestscoreminus icrestscoreplus
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qui su `restscore`i''
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local maxrestscore=r(max)
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forvalues l=1/`maxrestscore' {
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qui count if `restscore`i''==`l'
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local nrestscore`i'=r(N)
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}
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qui gen `icrestscoreminus'=`proprestscore`i'1'-1.96*sqrt(`proprestscore`i'1'*(1-`proprestscore`i'1')/`nrestscore`i'')
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qui gen `icrestscoreplus'=`proprestscore`i'1'+1.96*sqrt(`proprestscore`i'1'*(1-`proprestscore`i'1')/`nrestscore`i'')
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label variable `icrestscoreminus' "Lower 95% confidence interval"
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label variable `icrestscoreplus' "Upper 95% confidence interval"
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local y`i'="`icrestscoreminus' `icrestscoreplus' `proprestscore`i'1'"
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local style="dash dash solid"
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local color="red red black"
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local width="thin thin medthick"
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}
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if `modamax`i''==1&"`test'"!="" {
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qui regress `proprestscore`i'1' `varscore'
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local p=Fden(e(df_m),e(df_r),e(F))
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if `p'<0.0001 {
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local note="Test: slope=0, p<0.0001"
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}
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else {
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local p=substr("`p'",1,6)
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local note="Test: slope=0, p=`p'"
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}
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}
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}
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local restscoremax=`scoremax'-`modamax`i''
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if ("``i''"=="`onlyone'"|"`onlyone'"=="")&"`nograph'"!="" {
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*tab `proprestscore`i'1' `restscore`i''
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qui graph twoway (line `y`i'' `restscore`i'', clpattern(`style') clcolor(`color') clwidth(`width')), note("`note'") ylabel(0(0.25)1) xlabel(`minimum'(1)`nbgroups',valuelabel) name(restscore`i',replace) title("Trace of the item ``i'' as a function of the restscore") ytitle("Rate of positive response") `draw'
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}
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global restscore "$restscore restscore`i'"
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if "`restscorefiles'"!="" {
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graph save restscore`i' `repfiles'\\`restscorefiles'``i'' ,`replace'
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}
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}
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}
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if "`logistic'"!="" {
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forvalues i=1/`nbitems' {
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qui logistic ``i'' `varscore'
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tempname coef
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matrix `coef'=e(b)
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local pente`i'=`coef'[1,1]
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local intercept`i'=`coef'[1,2]
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tempvar logit`i'
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qui gen `logit`i''=exp(`intercept`i''+`pente`i''*`varscore')/(1+exp(`intercept`i''+`pente`i''*`varscore'))
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label variable `logit`i'' "Item ``i''"
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sort `varscore'
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global logistic "$logistic `logit`i''"
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}
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}
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if "`drawcomb'"!="" {
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local drawcomb="nodraw"
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}
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*di " (`score'!=&`onlyone'==)&`nograph'!= {"
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if ("`score'"!=""&"`onlyone'"=="")&"`nograph'"!="" {
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graph combine $score , title("Trace of the items as a function of the score") name(score,replace) `drawcomb'
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if "`scorefiles'"!="" {
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graph save score `repfiles'\\`scorefiles' ,`replace'
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}
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}
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if ("`restscore'"!=""&"`onlyone'"=="")&"`nograph'"!="" {
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graph combine $restscore , title("Trace of the items as a function of the restscores") name(restscore,replace) `drawcomb'
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if "`restscorefiles'"!="" {
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graph save restscore `repfiles'\\`restscorefiles' ,`replace'
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}
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}
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if ("`logistic'"!="")&"`nograph'"!="" {
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graph twoway (line $logistic `varscore'), ylabel(0(0.25)1) xlabel(0(1)`nbitems') title("Logistic traces") ytitle("") name(logistic,replace) `drawcomb'
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if "`logisticfile'"!="" {
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graph save logistic `repfiles'\\`logisticfile' ,`replace'
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}
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}
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if "`saveicc'"!="" {
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return matrix matscore=`matscore'
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}
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end
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