Package: CNVRanger 1.23.0

Ludwig Geistlinger

CNVRanger: Summarization and expression/phenotype association of CNV ranges

The CNVRanger package implements a comprehensive tool suite for CNV analysis. This includes functionality for summarizing individual CNV calls across a population, assessing overlap with functional genomic regions, and association analysis with gene expression and quantitative phenotypes.

Authors:Ludwig Geistlinger [aut, cre], Vinicius Henrique da Silva [aut], Marcel Ramos [ctb], Levi Waldron [ctb]

CNVRanger_1.23.0.tar.gz
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CNVRanger.pdf |CNVRanger.html✨
CNVRanger/json (API)
NEWS

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

Bug tracker:https://github.com/waldronlab/cnvranger/issues

On BioConductor:CNVRanger-1.23.0(bioc 3.21)CNVRanger-1.22.0(bioc 3.20)

copynumbervariationdifferentialexpressiongeneexpressiongenomewideassociationgenomicvariationmicroarrayrnaseqsnpbioconductor-packageu24ca289073

5.77 score 7 stars 12 scripts 280 downloads 1 mentions 10 exports 65 dependencies

Last updated 5 months agofrom:7cbb1a6e9a. Checks:1 OK, 8 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 27 2025
R-4.5-winNOTEMar 27 2025
R-4.5-macNOTEMar 27 2025
R-4.5-linuxNOTEMar 27 2025
R-4.4-winNOTEMar 27 2025
R-4.4-macNOTEMar 27 2025
R-4.4-linuxNOTEMar 27 2025
R-4.3-winNOTEMar 27 2025
R-4.3-macNOTEMar 27 2025

Exports:cnvEQTLcnvGWAScnvOncoPrintgenerateGDSimportLrrBafplotEQTLplotManhattanplotRecurrentRegionspopulationRangessetupCnvGWAS

Dependencies:abindaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocParallelBiostringscalibrateclicodetoolscpp11crayoncurldata.tableDelayedArraydigestedgeRformatRfutile.loggerfutile.optionsGDSArraygdsfmtgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehttrIRangesjsonlitelambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmimeopensslplyrqqmanR6RaggedExperimentrappdirsRcppreshape2rlangS4ArraysS4VectorsSeqArraysnowSNPRelateSparseArraystatmodstringistringrSummarizedExperimentsysUCSC.utilsvctrsXVector

Summarization and quantitative trait analysis of CNV ranges

Vinicius Henrique da Silva, Ludwig Geistlinger

Rendered fromCNVRanger.Rmdusingknitr::rmarkdownon Mar 27 2025.

Last update: 2023-07-30
Started: 2018-10-17