Package: CNVfilteR 1.19.0
CNVfilteR: Identifies false positives of CNV calling tools by using SNV calls
CNVfilteR identifies those CNVs that can be discarded by using the single nucleotide variant (SNV) calls that are usually obtained in common NGS pipelines.
Authors:
CNVfilteR_1.19.0.tar.gz
CNVfilteR_1.19.0.zip(r-4.5)CNVfilteR_1.19.0.zip(r-4.4)CNVfilteR_1.19.0.zip(r-4.3)
CNVfilteR_1.19.0.tgz(r-4.4-any)CNVfilteR_1.19.0.tgz(r-4.3-any)
CNVfilteR_1.19.0.tar.gz(r-4.5-noble)CNVfilteR_1.19.0.tar.gz(r-4.4-noble)
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CNVfilteR.pdf |CNVfilteR.html✨
CNVfilteR/json (API)
NEWS
# Install 'CNVfilteR' in R: |
install.packages('CNVfilteR', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/jpuntomarcos/cnvfilter/issues
On BioConductor:CNVfilteR-1.19.0(bioc 3.20)CNVfilteR-1.18.0(bioc 3.19)
Last updated 2 months agofrom:f665198393
Exports:filterCNVsloadCNVcallsloadSNPsFromVCFloadVCFsplotAllCNVsplotScoringModelplotVariantsForCNV
Dependencies:abindAnnotationDbiAnnotationFilteraskpassassertthatbackportsbamsignalsbase64encbezierBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbiovizBasebitbit64bitopsblobBSgenomebslibcachemcheckmatecliclustercn.mopscodetoolscolorspaceCopyNumberPlotscpp11crayoncurldata.tableDBIDelayedArraydichromatdigestensembldbevaluatefansifarverfastmapfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtablehighrHmischtmlTablehtmltoolshtmlwidgetshttrIRangesisobandjquerylibjsonlitekaryoploteRKEGGRESTknitrlabelinglambda.rlatticelazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmennetopensslpillarpkgconfigplogrpngpracmaProtGenericsR6rappdirsRColorBrewerRcppRCurlregioneRrestfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownrpartRsamtoolsRSQLiterstudioapirtracklayerS4ArraysS4VectorssassscalessnowSparseArraystringistringrSummarizedExperimentsystibbletinytexUCSC.utilsutf8VariantAnnotationvctrsviridisviridisLitewithrxfunXMLXVectoryamlzlibbioc
Readme and manuals
Help Manual
Help page | Topics |
---|---|
auxAddCNcolumn | auxAddCNcolumn |
auxGetVcfSource | auxGetVcfSource |
auxProcessVariants | auxProcessVariants |
filterCNVs | filterCNVs |
getVariantScore | getVariantScore |
loadCNVcalls | loadCNVcalls |
loadSNPsFromVCF | loadSNPsFromVCF |
loadVCFs | loadVCFs |
plotAllCNVs | plotAllCNVs |
plotVariantsForCNV | plotScoringModel |
plotVariantsForCNV | plotVariantsForCNV |