Package: UKB.COVID19 0.1.6
UKB.COVID19: UK Biobank COVID-19 Data Processing and Risk Factor Association Tests
Process UK Biobank COVID-19 test result data for susceptibility, severity and mortality analyses, perform potential non-genetic COVID-19 risk factor and co-morbidity association tests. Wang et al. (2021) <doi:10.5281/zenodo.5174381>.
Authors:
UKB.COVID19_0.1.6.tar.gz
UKB.COVID19_0.1.6.zip(r-4.5)UKB.COVID19_0.1.6.zip(r-4.4)UKB.COVID19_0.1.6.zip(r-4.3)
UKB.COVID19_0.1.6.tgz(r-4.4-any)UKB.COVID19_0.1.6.tgz(r-4.3-any)
UKB.COVID19_0.1.6.tar.gz(r-4.5-noble)UKB.COVID19_0.1.6.tar.gz(r-4.4-noble)
UKB.COVID19_0.1.6.tgz(r-4.4-emscripten)UKB.COVID19_0.1.6.tgz(r-4.3-emscripten)
UKB.COVID19.pdf |UKB.COVID19.html✨
UKB.COVID19/json (API)
NEWS
# Install 'UKB.COVID19' in R: |
install.packages('UKB.COVID19', repos = c('https://bahlolab.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bahlolab/ukb.covid19/issues
Last updated 3 months agofrom:ddd69d471b. Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 16 2024 |
R-4.5-win | OK | Oct 16 2024 |
R-4.5-linux | OK | Oct 16 2024 |
R-4.4-win | OK | Oct 16 2024 |
R-4.4-mac | OK | Oct 16 2024 |
R-4.3-win | OK | Oct 16 2024 |
R-4.3-mac | OK | Oct 16 2024 |
Exports:comorbidity_assocomorbidity_summarycovid_exampledata_reformlog_covmakeGWASFilesmakePhenotypesrisk_factorsampleQCvariantQC
Dependencies:askpassbackportsbase64encbitbit64blobbroombslibcachemcallrcellrangerclassclassIntclicliprcolorspacecommonmarkconflictedcpp11crayoncurldata.tableDBIdbplyrdigestdplyrdtplyre1071evaluatefansifarverfastmapfontawesomeforcatsfsgarglegenericsggplot2gluegoogledrivegooglesheets4gtablehavenherehighrhmshtmltoolshttpuvhttridsisobandjquerylibjsonliteKernSmoothknitrlabelinglabelledlaterlatticelifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimeminiUImodelrmunsellnlmeopensslpillarpkgconfigprettyunitsprocessxprogresspromisesproxypspurrrquestionrR.cacheR.methodsS3R.ooR.utilsR6raggrappdirsRColorBrewerRcppreadrreadxlrematchrematch2reprexrlangrmarkdownrprojrootrstudioapirvestsassscalesselectrshinysourcetoolsstringistringrstylersyssystemfontstextshapingtibbletidyrtidyselecttidyversetimechangetinytextzdbutf8uuidvctrsviridisLitevroomwithrxfunxml2xtableyaml
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Generate comorbidity association result file | comorbidity_asso |
Create comorbidity summary file | comorbidity_summary |
Provide working directory for UKB.COVID19 example files | covid_example |
Reform variables | data_reform |
Perform association tests between phenotype and covariates | log_cov |
Generate files for GWAS Software. SAIGE and Plink currently supported. | makeGWASFiles |
Generate COVID-19 phenotypes | makePhenotypes |
Generate covariate file | risk_factor |
Sample QC for genetic analyses | sampleQC |
Variant QC for Genetic Analyses | variantQC |