HopkinsIDD / cholera-mapping-pipeline

Formerly part of cholera-taxonomy. The map creation scripts, packages, and file structure
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BDI 2016-20 #376

Open eclee25 opened 1 year ago

QLLZ commented 1 year ago

Data pull: HASH: 6772ea9da4f43ddc3da11c494a573af2ca3dd3c8 config

QLLZ commented 1 year ago

Model run: HASH: 6772ea9da4f43ddc3da11c494a573af2ca3dd3c8

QLLZ commented 1 year ago

Country data report

eclee25 commented 1 year ago

Convergence is mostly good, with some slight instability in rho, lambda, sd_w, and some of the w. There are large variations in od_param as well. Rhats look good. Modeled estimates at observation and grid level match the data well, however, and seem to correspond with the GAM input. Sampling and warmup times are short (~2 min each), but this is not necessarily a problem.

Opinion: Approve

QLLZ commented 1 year ago

Config

Data pull:

HASH: 211913e0eb7d570ed62c48bc1ae9ecd6671a6cbc

QLLZ commented 1 year ago

Failed stan model run log file

QLLZ commented 1 year ago

Modeled cases look good. Convergency looks good. Population comparison looks good.

One question is in Figure 18. In the southwest part of the map, for adm2, the max posterior probability is >100 , while in admin1, the max posterior is <1. will look into this.

eclee25 commented 1 year ago

@QLLZ I'm a bit confused about how there are comments for this one when the stan model failed.

QLLZ commented 1 year ago

Rerun on dev_u_combs_fix

HASH: e56580fa5ddab00293e31ff90139351f80ae3f6c

QLLZ commented 1 year ago

Country data reports

eclee25 commented 1 year ago

All diags look good. Approve

QLLZ commented 1 year ago

Data pull, model run:

HASH: 05f598b95b5d42ac0049963f8a0b7e04d6f1dbd7

javierps commented 1 year ago

Sep 2023 Production run: all OK.

Suggestion: accept.

eclee25 commented 1 year ago

Approve