Files accessed by specio | .DP | .xml | .SPT - EPP results for Spectrum | Section 1: National results | Section 2: National F/M ratios and IDU info | Section 3: Total workset results | Section 4: Workset F/M ratios and IDU info | Section 5: First sub-population results | Section 6: First sub-population F/M ratios and IDU info | General notes | .SPU - EPP uncertainty results for Spectrum | Files not currently accessed by specio | ep1 - year and demographic inputs that EPP needs from Spectrum | typ - type of the EPP workset either GENERALIZED or CONCENTRATED | ep4 - ART data and parameters
Package: specio 0.1.4
Robert Ashton
specio: Read Spectrum Files
Read data from Spectrum PJNZ file into R consumable format for EPP.
Authors:
specio_0.1.4.tar.gz
specio_0.1.4.zip(r-4.7)specio_0.1.4.zip(r-4.6)specio_0.1.4.zip(r-4.5)
specio_0.1.4.tgz(r-4.6-any)specio_0.1.4.tgz(r-4.5-any)
specio_0.1.4.tar.gz(r-4.7-any)specio_0.1.4.tar.gz(r-4.6-any)
specio_0.1.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
specio/json (API)
| # Install 'specio' in R: |
| install.packages('specio', repos = c('https://mrc-ide.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mrc-ide/specio/issues
Last updated from:11535cf222 (on master). Checks:7 ERROR, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | ERROR | 144 | ||
| source / vignettes | OK | 216 | ||
| linux-release-x86_64 | ERROR | 140 | ||
| macos-release-arm64 | ERROR | 85 | ||
| macos-oldrel-arm64 | ERROR | 93 | ||
| windows-devel | ERROR | 133 | ||
| windows-release | ERROR | 88 | ||
| windows-oldrel | ERROR | 94 | ||
| wasm-release | OK | 102 |
Exports:read_art_popread_epp_dataread_epp_subpopsread_hiv_popread_hivproj_paramread_pjn_metadataread_sptread_spuread_total_pop
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Extract ART population data from PJNZ file | read_art_pop |
| Read EPP fitting surveillance data | read_epp_data |
| Read EPP subpopulation configuration. | read_epp_subpops |
| Extract people living with HIV (PLHIV) from PJNZ file | read_hiv_pop |
| Read params from DP and PJN file required for HIV model. | read_hivproj_param |
| Get country name, iso3 code and spectrum region code from PJNZ | read_pjn_metadata |
| Read best fitting HIV incidence and prevalence data from SPT file. | read_spt |
| Read EPP uncertainty results from SPU file. | read_spu |
| Extract population data from PJNZ file | read_total_pop |
