Package: SubgrpID 0.14
Xin Huang
SubgrpID: Patient Subgroup Identification for Clinical Drug Development
Implementation of Sequential BATTing (bootstrapping and aggregating of thresholds from trees) for developing threshold-based multivariate (prognostic/predictive) biomarker signatures. Variable selection is automatically built-in. Final signatures are returned with interaction plots for predictive signatures. Cross-validation performance evaluation and testing dataset results are also output. Detail algorithms are described in Huang et al (2017) <doi:10.1002/sim.7236>.
Authors:
SubgrpID_0.14.tar.gz
SubgrpID_0.14.tar.gz(r-4.7-any)SubgrpID_0.14.tar.gz(r-4.6-any)
SubgrpID_0.14.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SubgrpID/json (API)
| # Install 'SubgrpID' in R: |
| install.packages('SubgrpID', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/xhuang4/seqbatting-html/issues
Last updated from:c5389ef0d4. Checks:4 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 124 | ||
| source / vignettes | OK | 174 | ||
| linux-release-x86_64 | OK | 144 | ||
| wasm-release | OK | 106 |
Exports:data.genprefilter_variablesSubgrpID
Dependencies:clicodetoolscpp11farverforeachggplot2glmnetgluegtableisobanditeratorslabelinglatticelifecycleMASSMatrixR6RColorBrewerRcppRcppEigenrlangrpartS7scalesshapesurvivalvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| .prefilter_glmnet | .prefilter_glmnet |
| .prefilter_unicart | .prefilter_unicart |
| .prefilter_univariate | .prefilter_univariate |
| balanced.folds | balanced.folds |
| batting.pred | batting.pred |
| batting.prog | batting.prog |
| binary.stats | binary.stats |
| cv.folds | cv.folds |
| cv.pval | cv.pval |
| cv.seqlr.batting | cv.seqlr.batting |
| data.gen | data.gen |
| evaluate.cv.results | evaluate.cv.results |
| evaluate.results | evaluate.results |
| find.pred.stats | find.pred.stats |
| find.prog.stats | find.prog.stats |
| get.var.counts.seq | get.var.counts.seq |
| interaction.plot | interaction.plot |
| kfold.cv | kfold.cv |
| make.arg.list | make.arg.list |
| permute.rows | permute.rows |
| permute.vector | permute.vector |
| pred.seqlr | pred.seqlr |
| pred.seqlr.cv | pred.seqlr.cv |
| prefilter_variables | prefilter_variables |
| query.data | query.data |
| resample | resample |
| seqlr.batting | seqlr.batting |
| seqlr.batting.wrapper | seqlr.batting.wrapper |
| seqlr.find.cutoff.pred | seqlr.find.cutoff.pred |
| seqlr.find.cutoff.prog | seqlr.find.cutoff.prog |
| seqlr.score.pred | seqlr.score.pred |
| seqlr.score.prog | seqlr.score.prog |
| SubgrpID | SubgrpID |
| summarize.cv.stats | summarize.cv.stats |