Updates to HIV module in line with newly received data by tdm32 · Pull Request #1616 · UCL/TLOmodel

tdm32 · 2025-05-07T14:51:43Z

This PR will contain all the updates to the HIV and related modules given both the insights gained from the MIHPSA work and the new data received from DHA.

Updates include:

better classification of FSW population, this is now a capped figure which is stable over time
HIV self-testing included and calibrated to recent reports
prep for FSW included through regular poll
retention on PrEP increased to match person-years on PrEP from MOH reports
loggers for person-years on prep and new VMMC included
death rates for HIV/TB co-infection modified to reduce overall death rate in line with Spectrum estimates

…ation size reduce RR for HIV for FSW

update prep for agyw poll add prep for fsw poll

…tment, risk falls to 0.15 if on treatment

VL logger

tdm32 · 2025-05-07T14:52:49Z

@joehcollins this branch will contain all the ongoing updates to the HIV (and related) modules. Once tests have passed, we can merge this into your branch for the integration work. More updates are coming...

joehcollins · 2025-05-08T13:35:50Z

Hi @tdm32 - thanks for this. So once this is merged in then we add the logic for changing screening in the integration module?

tdm32 · 2025-05-08T14:16:04Z

Hi @tdm32 - thanks for this. So once this is merged in then we add the logic for changing screening in the integration module?

Once the tests are passing, this could go in. Then I'll work from your branch to add in the screening - hopefully Monday

…ty around the calibration targets

# Conflicts: # resources/ResourceFile_Improved_Healthsystem_And_Healthcare_Seeking/main.csv # resources/ResourceFile_LabourSkilledBirthAttendance/parameter_values.csv # resources/ResourceFile_PregnancySupervisor/parameter_values.csv

…ad testing starting in 2016. update prob_viral_suppression() with adjusted values allow 0.1% default each 3 months

…d healthcare seeking sheet

…following advice from DHA

update figures to use MPHIA 2020

tdm32 · 2026-01-26T15:24:25Z

@tbhallett This is ready for review now

tbhallett · 2026-01-27T18:06:45Z

Failing test: looks to be simpe typo. when listing the name of the HSI in the priorty policy file: 'Hiv_Test_Selftest' vs 'Hiv_Test_SelfTest.

tdm32 · 2026-01-28T09:34:17Z

Failing test: looks to be simpe typo. when listing the name of the HSI in the priorty policy file: 'Hiv_Test_Selftest' vs 'Hiv_Test_SelfTest.

Thanks @tbhallett fixed now

tbhallett

Lots of nice innovations here and all coded nicely.
See just a few comments aboud tidying up some small bits and pieces.

src/scripts/hiv/program_simplification/analysis_hiv_program_simplification_draws.json

src/tlo/methods/enhanced_lifestyle.py

tests/test_hiv.py

src/tlo/methods/hiv.py

remove json

…2025

tdm32 added 8 commits May 7, 2025 14:45

update recruitment for fsw - capped at 39,000 scaled by initial popul…

00e54d7

…ation size reduce RR for HIV for FSW

add hiv self-tests

9bdbefc

update prep for agyw poll add prep for fsw poll

modify death rates for people with HIV and TB, risk is 0.5 if no trea…

3bbee4a

…tment, risk falls to 0.15 if on treatment

update AGYW - limit to age 25 max

1dd379a

logger for days on prep - AGYW and FSW

f1fa557

VL logger

add parameter for selt-testing availability in policy

da694bc

update retention on prep to 0.85

6c1432f

add logger outputs for PY on PrEP and new VMMC

7f4e375

tdm32 added 4 commits May 7, 2025 16:20

fix lm argument

bf7101e

update lm for lifestyle

38d4a7a

linting

05273ae

fix failing hiv test

ac51339

tdm32 and others added 15 commits May 12, 2025 09:54

update tolerance of hiv prevalence in test_hiv to match the uncertain…

3e1303d

…ty around the calibration targets

update test_hiv.py to fix failing test

a2eb5ba

merge in master

4ca66a6

incoming changes from master

76ced6d

Merge remote-tracking branch 'origin/master'

2ed1de6

# Conflicts: # resources/ResourceFile_Improved_Healthsystem_And_Healthcare_Seeking/main.csv # resources/ResourceFile_LabourSkilledBirthAttendance/parameter_values.csv # resources/ResourceFile_PregnancySupervisor/parameter_values.csv

Merge branch 'master' into tara_update_hiv_May2025

2bc49bb

update spectrum projections for treatment cascade

8ebd406

update sheet with prob viral suppression, add adjustment for viral lo…

5ca1780

…ad testing starting in 2016. update prob_viral_suppression() with adjusted values allow 0.1% default each 3 months

remove parameter vs_adjustment

8d96ede

remove parameter treatment_initiation_adjustment

3018799

remove treatment_initiation_adjustment and vs_adjustment from improve…

59554e6

…d healthcare seeking sheet

remove TB screening from HIV test appt following DHA advice

f0c1232

move HIV test from TB screening appt to TB treatment initiation appt …

d62fa89

…following advice from DHA

update HIV treatment appt with TB screening appt

6d3c49a

update childrens program data AIDSInfo

401efb6

update figures to use MPHIA 2020

update param types for test_analysis checks

78167f3

tdm32 marked this pull request as ready for review January 26, 2026 15:23

tdm32 requested a review from tbhallett January 26, 2026 15:24

tdm32 added 2 commits January 26, 2026 16:24

update treatment_id in priority policies

da5cfae

update treatment_id in priority policies

5393f1f

update treatment ID in priority policies

93e07b3

tbhallett requested changes Jan 29, 2026

View reviewed changes

tdm32 added 14 commits January 31, 2026 11:46

fix fsw parameters

80960b2

remove json

replace WASH logging in enhanced_lifestyle.py

0f0bdb5

fix typo in comment

c00c7d9

add comments for test containers

7882e48

rmeove magic numbers for 3hp and ipt dosage

5d40560

clarify dict for vl testing availability

a634bb1

update tdf test results to bool

63d6665

fix error in return statement

3db6506

remove unneeded logger

45d8e74

remove unneeded logging

63d7b82

Merge remote-tracking branch 'origin/master' into tara_update_hiv_May…

3726707

…2025

remove unneeded logging

005b5de

fix missing comma

4cfd1c2

update test_tb to use the updated parameter for length IPT dispensation

d889bc1

tbhallett approved these changes Feb 9, 2026

View reviewed changes

tbhallett merged commit 36e36cc into master Feb 9, 2026
67 checks passed

tbhallett deleted the tara_update_hiv_May2025 branch February 9, 2026 17:04

This was referenced Feb 10, 2026

Change M timedelta to 4 weeks in Lifestyle #1811

Closed

Fix unsupported timedelta unit in Lifestyle #1808

Closed

tamuri mentioned this pull request Feb 25, 2026

Update the correct column if HIV HSI event didn't run #1835

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Updates to HIV module in line with newly received data#1616

Updates to HIV module in line with newly received data#1616
tbhallett merged 161 commits intomasterfrom
tara_update_hiv_May2025

tdm32 commented May 7, 2025

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tdm32 commented May 7, 2025

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joehcollins commented May 8, 2025

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tdm32 commented May 7, 2025

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joehcollins commented May 8, 2025

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tdm32 commented May 8, 2025

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tdm32 commented Jan 26, 2026

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