Package: maPredictDSC 1.43.0

Adi Laurentiu Tarca

maPredictDSC: Phenotype prediction using microarray data: approach of the best overall team in the IMPROVER Diagnostic Signature Challenge

This package implements the classification pipeline of the best overall team (Team221) in the IMPROVER Diagnostic Signature Challenge. Additional functionality is added to compare 27 combinations of data preprocessing, feature selection and classifier types.

Authors:Adi Laurentiu Tarca <[email protected]>

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# Install 'maPredictDSC' in R:

install.packages('maPredictDSC', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:maPredictDSC-1.43.0(bioc 3.20)maPredictDSC-1.42.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

3 exports 1.00 score 127 dependencies 1 mentions

Last updated 2 months agofrom:b552d0535f

Exports:aggregateDSC perfDSC predictDSC

Dependencies:affy affyio AnnotationDbi askpass Biobase BiocGenerics BiocManager Biostrings bit bit64 bitops blob cachem caret caTools class cli clock codetools colorspace cpp11 crayon curl data.table DBI diagram digest dplyr e1071 ellipsis evaluate fansi farver fastmap foreach future future.apply gcrma generics GenomeInfoDb GenomeInfoDbData ggplot2 globals glue gower gplots gtable gtools hardhat hgu133plus2.db highr httr ipred IRanges isoband iterators jsonlite KEGGREST KernSmooth knitr labeling lattice lava lifecycle limma listenv lubridate LungCancerACvsSCCGEO magrittr MASS Matrix memoise mgcv mime ModelMetrics munsell nlme nnet numDeriv openssl org.Hs.eg.db parallelly pillar pkgconfig plogr plyr png preprocessCore pROC prodlim progressr proxy purrr R6 RColorBrewer Rcpp recipes reshape2 rlang ROC ROCR rpart RSQLite S4Vectors scales shape SQUAREM statmod stringi stringr survival sys tibble tidyr tidyselect timechange timeDate tzdb UCSC.utils utf8 vctrs viridisLite withr xfun XVector yaml zlibbioc

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

Help page	Topics
Combine predictions from several fitted models fitted with predictDSC	aggregateDSC
Area Under the Precision-Recall Curve (AUPR), Belief Confusion Metric (BCM) and Correct Class Enrichment Metric (CCEM).	perfDSC
Phenotype prediction using microarray data: approach of the best overall team in the IMPROVER Diagnostic Signature Challenge	predictDSC

Package: maPredictDSC 1.43.0

maPredictDSC: Phenotype prediction using microarray data: approach of the best overall team in the IMPROVER Diagnostic Signature Challenge

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