Package: CaDrA 1.3.0

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_1.3.0.tar.gz
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CaDrA.pdf |CaDrA.html✨
CaDrA/json (API)
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Peer review:

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

On BioConductor:CaDrA-1.3.0(bioc 3.20)CaDrA-1.2.0(bioc 3.19)

bioconductor-package

9 exports 1.69 score 74 dependencies

Last updated 2 months agofrom:f2aad15da5

Exports:CaDrAcalc_rowscorecandidate_searchgenerate_permutationsmeta_plotpermutation_plotprefilter_datatopn_besttopn_plot

Dependencies:abindaskpassBiobaseBiocGenericsbitopscaToolsclicodetoolscolorspacecrayoncurlDelayedArraydigestdoParallelfansifarverforeachGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gluegplotsgtablegtoolshttrIRangesisobanditeratorsjsonliteKernSmoothlabelinglatticelifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmgcvmimemisc3dmunsellnlmeopensslpillarpkgconfigplyrppcorR.cacheR.methodsS3R.ooR.utilsR6RColorBrewerRcppreshape2rlangS4ArraysS4VectorsscalesSparseArraystringistringrSummarizedExperimentsystibbleUCSC.utilsutf8vctrsviridisLitewithrXVectorzlibbioc