Package: CaMutQC 1.1.0

Xin Wang

CaMutQC: An R Package for Comprehensive Filtration and Selection of Cancer Somatic Mutations

CaMutQC is able to filter false positive mutations generated due to technical issues, as well as to select candidate cancer mutations through a series of well-structured functions by labeling mutations with various flags. And a detailed and vivid filter report will be offered after completing a whole filtration or selection section. Also, CaMutQC integrates serveral methods and gene panels for Tumor Mutational Burden (TMB) estimation.

Authors:Xin Wang [aut, cre]

CaMutQC_1.1.0.tar.gz
CaMutQC_1.1.0.zip(r-4.5)CaMutQC_1.1.0.zip(r-4.4)CaMutQC_1.1.0.zip(r-4.3)
CaMutQC_1.1.0.tgz(r-4.4-any)CaMutQC_1.1.0.tgz(r-4.3-any)
CaMutQC_1.1.0.tar.gz(r-4.5-noble)CaMutQC_1.1.0.tar.gz(r-4.4-noble)
CaMutQC_1.1.0.tgz(r-4.4-emscripten)CaMutQC_1.1.0.tgz(r-4.3-emscripten)
CaMutQC.pdf |CaMutQC.html✨
CaMutQC/json (API)

Peer review:

Bug tracker:https://github.com/likelet/camutqc/issues

On BioConductor:CaMutQC-1.1.0(bioc 3.20)CaMutQC-1.0.0(bioc 3.19)

bioconductor-package

18 exports 1.90 score 167 dependencies

Last updated 2 months agofrom:f2d131dab3

Exports:calTMBmutFilterAdjmutFilterCanmutFilterCommutFilterDBmutFilterNormalDPmutFilterPONmutFilterQualmutFilterRefmutFilterRegmutFilterSBmutFilterTechmutFilterTypemutSelectionprocessMuttomaftoolstoMesKitvcfToMAF

Dependencies:AnnotationDbiapeaplotaskpassbase64encBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobbslibcachemcirclizecliclueclusterclusterProfilercodetoolscolorspaceComplexHeatmapcowplotcpp11crayoncrosstalkcurldata.tableDBIdigestDNAcopydoParallelDOSEdownloaderdplyrDTenrichplotevaluatefansifarverfastmapfastmatchfgseafontawesomeforeachformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGetoptLongggforceggfunggnewscaleggplot2ggplotifyggraphggrepelggridgesggtreeGlobalOptionsglueGO.dbGOSemSimgraphlayoutsgridExtragridGraphicsgsongtableHDO.dbhighrhtmltoolshtmlwidgetshttpuvhttrigraphIRangesisobanditeratorsjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclemaftoolsmagrittrMASSMatrixmatrixStatsmclustmemoisememuseMesKitmgcvmimemunsellnlmeopensslorg.Hs.eg.dbpatchworkpermutephangornpillarpinfsc50pkgconfigplogrplyrpngpolyclippracmapromisespurrrquadprogqvalueR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenreshape2RhtslibrjsonrlangrmarkdownRSQLiteS4VectorssassscalesscatterpieshadowtextshapesnowstringistringrsurvivalsyssystemfontstibbletidygraphtidyrtidyselecttidytreetinytextreeiotweenrUCSC.utilsutf8vcfRvctrsveganviridisviridisLitewithrxfunXVectoryamlyulab.utilszlibbioc