Package: vtpnet 0.47.0

VJ Carey

vtpnet: variant-transcription factor-phenotype networks

variant-transcription factor-phenotype networks, inspired by Maurano et al., Science (2012), PMID 22955828

Authors:VJ Carey <[email protected]>

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vtpnet.pdf |vtpnet.html✨
vtpnet/json (API)

# Install 'vtpnet' in R:
install.packages('vtpnet', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • cancerMap - Variant-transcription factor-phenotype networks
  • maurGWAS - Variant-transcription factor-phenotype networks
  • pax4 - Variant-transcription factor-phenotype networks
  • pax4_75 - Variant-transcription factor-phenotype networks
  • pax4_85 - Variant-transcription factor-phenotype networks

On BioConductor:vtpnet-0.47.0(bioc 3.21)vtpnet-0.46.0(bioc 3.20)

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

network

3.30 score 1 scripts 284 downloads 9 exports 104 dependencies

Last updated 4 months agofrom:822bd57a20. Checks:1 OK, 7 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 29 2025
R-4.5-winNOTEJan 29 2025
R-4.5-macNOTEJan 29 2025
R-4.5-linuxNOTEJan 29 2025
R-4.4-winNOTEJan 29 2025
R-4.4-macNOTEJan 29 2025
R-4.3-winNOTEJan 29 2025
R-4.3-macNOTEJan 29 2025

Exports:filterGWASbyMapgetMtagsgetOneHitsgwMatchPWMmatrcMdbSearchToDiskrng2facHitsrunfimosetupGWPM

Dependencies:abindAnnotationDbiAnnotationHubaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocManagerBiocParallelBiocVersionBiostringsbitbit64bitopsblobBSgenomecachemclicliprcodetoolscpp11crayoncurlDBIdbplyrDelayedArraydoParalleldplyrfansifastmapfilelockforeachformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesgluegraphgwascathmshttrIRangesiteratorsjsonliteKEGGRESTlambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigplogrpngprettyunitsprogresspurrrR6rappdirsRCurlreadrrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorssnowsnpStatsSparseArraystringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttzdbUCSC.utilsutf8VariantAnnotationvctrsvroomwithrXMLXVectoryamlzlibbioc

vtpnet: variant-transcription factor-network tools

Rendered fromvtpnet.Rnwusingutils::Sweaveon Jan 29 2025.

Last update: 2020-10-21
Started: 2013-05-30

Readme and manuals

Help Manual

Help pageTopics
variant-transcription factor-phenotype networksvtpnet-package cancerMap filterGWASbyMap getMtags getOneHits gwMatchPWM matrc maurGWAS MdbSearchToDisk pax4 pax4_75 pax4_85 rng2facHits runfimo setupGWPM vtpnet