NEWS.md

In jeffeaton/epp: R Implementation of the EPP model for HIV epidemic estimates.

epp 0.4.4

• Add function read_epp_workset_options() to read ANC prevalence adjustment and EPP-ASM model option selections in EPP Curve Fitting page.
• Update read_epp_data() to read household survey ART coverage inputs.

epp 0.4.3

• Add function read_eppxml_results() to read projection outputs from EPP .xml file including ART coverage.

epp 0.4.2

• Add type.convert(..., as.is = TRUE) to silence R 4.1 warning.

epp 0.4.1

• Handle new data structure for household survey data introduced in EPP 2019.

epp 0.4.0

• Update EPP .xml file parsers to use xml2 package instead of XML package. Improved logic and efficiency for parsers.
• Search XML node trees rather than rely on node position. More robust and code now works to read data from concentrated epidemic structured EPP files
• Parse subpopulation characteristics and turnover from concentrated epidemic files.
• Read incidence data inputs.

epp 0.3.3

• Only read ANC-RT data if used in EPP fit

epp 0.3.2

• ~~IMIS offsets likelihood by maximum log-likelihood to avoid underflow.~~ Rolled this back because it introduced a pernicious little bug in mixture weights when offset changes numerical underflow. Should be re-implemented more carefully later.
• Added option to likelihood() to return log values.

epp 0.3.1

• Updates to IMIS optimization step:
• Do random sample as well in each iteration
• Reduce numerical integration stepsize and try again if BFGS encounters non-finite difference error
• Use last value from center_all to initialise optimization if no positive samples remain

epp 0.3

• Implement ANC routine testing (ANC-RT) likelihood in EPP 2017 (Spectrum 5.52)

jeffeaton/epp documentation built on Jan. 12, 2024, 8:56 p.m.