Adding CS Linelist MTCT for assessing PMTCT gaps

Scripts/REPORTING/HIVCaseSurveillance/load_cs_LinelistMTCT.sql

@@ -0,0 +1,124 @@
+IF OBJECT_ID(N'[HIVCaseSurveillance].[dbo].[CsLinelistMTCT]', N'U') IS NOT NULL 
+    DROP TABLE [HIVCaseSurveillance].[dbo].[CsLinelistMTCT]
+    Begin
+WITH Unsuppressed_Viral_Load
+
+ As (
+    SELECT
+    vlhist.PatientKey,
+    pat.PatientPKHash,
+    row_number () over (partition by  vlhist.PatientKey order by OrderedbyDatekey desc) as rank,
+    vlhist.FacilityKey,
+    fac.MFLCode,
+    vlhist.AgeGroupKey,
+    TestResult,
+    IsPBFW,
+    hei.MothersPatientKey,
+    fac.FacilityName
+    from NDWH.Fact.FactViralLoad_Historical as vlhist
+    left join NDWH.Dim.DimPatient as pat on pat.PatientKey=vlhist.Patientkey
+    left join NDWH.Dim.DimFacility as fac on fac.FacilityKey=vlhist.Facilitykey
+    left join NDWH.Fact.FactHEI as hei on hei.PatientKey=vlhist.PatientKey
+    where   TRY_CAST(REPLACE(TestResult, ',', '') AS FLOAT) >= 200.00
+),
+Unsuppressed_Viralloads_LatestRecord as (
+    SELECT
+    PatientKey,
+    PatientPKHash,
+    MothersPatientKey,
+    MFLCode,
+    TestResult,
+    IsPBFW
+    from Unsuppressed_Viral_Load
+
+
+    where rank=1
+),
+HEIs AS (
+    SELECT
+    heis.Patientkey,
+    pat.DOB,   
+    eomonth(DOB) as CohortYearMonth,
+    fac.MFLCode,
+    fac.FacilityName,
+    fac.County,
+    fac.SubCounty,
+    agency.AgencyName,
+    partner.PartnerName,
+    age.DATIMAgeGroup,
+    heis.MothersPatientKey,
+    Paired,
+    MotherOnART,
+    OnProhylaxis as InfantGivenProphylaxis,
+    InfectedAt24mnths,
+    HEIHIVStatus,
+    HasFinalAntibody,
+    age.DatimAgeGroup as AgeGroup,
+    pat.Gender,
+    case when vls.MothersPatientKey is not null then 1 Else 0 End as MotherUnsuppressedDuringPBF
+    from NDWH.Fact.FactHEI as heis
+    left join NDWH.Dim.DimFacility as fac on fac.FacilityKey=heis.FacilityKey
+    left join NDWH.Dim.DimAgency as agency on agency.AgencyKey=heis.AgencyKey
+    left join NDWH.Dim.DimPartner as partner on partner.PartnerKey=heis.PartnerKey
+    left join NDWH.Dim.DimAgeGroup as age on age.AgeGroupKey=heis.AgeGroupKey
+    left join NDWH.Dim.DimPatient as pat on pat.PatientKey=heis.PatientKey
+    left join Unsuppressed_Viralloads_LatestRecord as vls on vls.MothersPatientKey = heis.MothersPatientKey and vls.mflcode=fac.MFLCode
+
+
+),
+PBFW_StartDate as (
+    Select
+     ROW_NUMBER() OVER (PARTITION BY pbfw.Patientkey ORDER BY COALESCE(Ancdate1, Ancdate2, Ancdate3, Ancdate4) ASC) AS num,
+    pbfw.Patientkey,
+    pat.PatientPKHash,
+    fac.MFLCode,
+    coalesce (Ancdate1,Ancdate2,Ancdate3,Ancdate4) as FirstVisitDuringPBFW
+    from NDWH.Fact.Factpbfw as pbfw
+    left join NDWH.Dim.DimPatient as pat on pat.PatientKey=pbfw.Patientkey
+    left join NDWH.Dim.DimFacility as fac on fac.FacilityKey=pbfw.Facilitykey
+    where COALESCE(Ancdate1, Ancdate2, Ancdate3, Ancdate4) is not null
+),
+IIT as (
+    Select 
+    arthist.PatientKey,
+     Row_number() OVER ( Partition BY  arthist.Patientkey ORDER BY  AsOfDate desc ) as num,
+    AsOfDate,
+    ARTOutcome
+    from NDWH.Fact.FactARTHistory as arthist
+    left join PBFW_StartDate on PBFW_StartDate.Patientkey=arthist.PatientKey
+ WHERE ARTOutcome IN ('UNDOCUMENTED LOSS', 'LOSS TO FOLLOW UP')  AND AsOfDate BETWEEN 
+(SELECT MIN(FirstVisitDuringPBFW) FROM PBFW_StartDate) 
+AND (SELECT MAX(FirstVisitDuringPBFW) FROM PBFW_StartDate)
+)
+Select 
+        HEIs.PatientKey,
+        DOB,
+        HEIs.MFLCode,
+        HEIs.FacilityName,
+        AgencyName,
+        PartnerName,
+        CohortYearMonth,
+        County,
+        SubCounty,
+        DATIMAgeGroup as AgeGroup,
+        MothersPatientKey,
+        Paired,
+        MotherOnART,
+        case when HEIs.PatientKey is not null then 1 Else 0 End as IsHEI,
+        case when MotherOnART=0 Then 1 Else 0 End as MothersNotonART,
+        InfantGivenProphylaxis,
+        case when InfantGivenProphylaxis =0 Then 1 Else 0 End as InfantNotGivenProphylaxis,
+        case when MothersPatientKey is not null then 1 Else 0 End as KPandP,
+        InfectedAt24mnths as PositiveInfants,
+        MotherUnsuppressedDuringPBF,
+       FirstVisitDuringPBFW,
+       case when IIT.PatientKey is not null then 1 Else 0 End as IITEpisode
+        Into  [HIVCaseSurveillance].[dbo].[CsLinelistMTCT]
+ from HEIs
+ left JOIN PBFW_StartDate on PBFW_StartDate.Patientkey=HEIs.MothersPatientKey and PBFW_StartDate.MFLCode=HEIs.MFLCode
+ left join IIT on IIT.PatientKey=HEIs.PatientKey and IIT.num=1
+End
+
+
+
+--168,328