Package: CaDrA 1.11.0

Reina Chau

CaDrA: Candidate Driver Analysis

Performs both stepwise and backward heuristic search for candidate (epi)genetic drivers based on a binary multi-omics dataset. CaDrA's main objective is to identify features which, together, are significantly skewed or enriched pertaining to a given vector of continuous scores (e.g. sample-specific scores representing a phenotypic readout of interest, such as protein expression, pathway activity, etc.), based on the union occurence (i.e. logical OR) of the events.

Authors:Reina Chau [aut, cre], Katia Bulekova [aut], Vinay Kartha [aut], Stefano Monti [aut]

CaDrA_1.11.0.tar.gz
CaDrA_1.11.0.zip(r-4.7)CaDrA_1.11.0.zip(r-4.6)CaDrA_1.11.0.zip(r-4.5)
CaDrA_1.11.0.tgz(r-4.6-x86_64)CaDrA_1.11.0.tgz(r-4.6-arm64)CaDrA_1.11.0.tgz(r-4.5-x86_64)CaDrA_1.11.0.tgz(r-4.5-arm64)
CaDrA_1.11.0.tar.gz(r-4.7-arm64)CaDrA_1.11.0.tar.gz(r-4.7-x86_64)CaDrA_1.11.0.tar.gz(r-4.6-arm64)CaDrA_1.11.0.tar.gz(r-4.6-x86_64)
CaDrA_1.11.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
CaDrA/json (API)
NEWS

# Install 'CaDrA' in R:
install.packages('CaDrA', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/montilab/cadra/issues

Datasets:

On BioConductor:CaDrA-1.11.0(bioc 3.24)CaDrA-1.10.0(bioc 3.23)

microarrayrnaseqgeneexpressionsoftwarefeatureextraction

6.81 score 24 stars 10 scripts 283 downloads 9 exports 58 dependencies

Last updated from:3f8a9b7495. Checks:1 NOTE, 13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE213
linux-devel-arm64OK418
linux-devel-x86_64OK485
source / vignettesOK364
linux-release-arm64OK403
linux-release-x86_64OK440
macos-release-arm64OK335
macos-release-x86_64OK507
macos-oldrel-arm64OK237
macos-oldrel-x86_64OK621
windows-develOK279
windows-releaseOK411
windows-oldrelOK429
wasm-releaseOK177

Exports:CaDrAcalc_rowscorecandidate_searchgenerate_permutationsmeta_plotpermutation_plotprefilter_datatopn_besttopn_plot

Dependencies:abindBiobaseBiocGenericsbitopscaToolsclicodetoolscpp11DelayedArraydigestdoParallelfarverforeachgenericsGenomicRangesggplot2gluegplotsgtablegtoolsIRangesisobanditeratorsKernSmoothknnmilabelinglatticelifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmisc3dplyrppcorR.cacheR.methodsS3R.ooR.utilsR6RColorBrewerRcppreshape2rlangS4ArraysS4VectorsS7scalesSeqinfoSparseArraystringistringrSummarizedExperimentvctrsviridisLitewithrXVector

How to run CaDrA within a Docker Environment

Rendered fromdocker.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2024-03-14
Started: 2023-12-12

Permutation-Based Testing

Rendered frompermutation_based_testing.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2024-03-14
Started: 2022-07-10

Scoring Functions

Rendered fromscoring_functions.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2024-09-21
Started: 2022-07-10