Package: SPLINTER 1.31.0

Diana Low

SPLINTER: Splice Interpreter of Transcripts

Provides tools to analyze alternative splicing sites, interpret outcomes based on sequence information, select and design primers for site validiation and give visual representation of the event to guide downstream experiments.

Authors:Diana Low [aut, cre]

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SPLINTER.pdf |SPLINTER.html✨
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Bug tracker:https://github.com/dianalow/splinter/issues

On BioConductor:SPLINTER-1.31.0(bioc 3.20)SPLINTER-1.30.0(bioc 3.19)

bioconductor-package

25 exports 0.91 score 152 dependencies 16 mentions

Last updated 2 months agofrom:f70b793ee1

Exports:addEnsemblAnnotationannotateEventscallPrimer3checkPrimereventOutcomeCompareeventOutcomeTranslateeventPlotextendROIextractSpliceEventsextractSpliceSitesfindCompatibleEventsfindCompatibleExonfindTXgetPCRsizesgetRegionDNAinsertRegionmakeROImakeUniqueIDsplot_seqlogopsiPlotremoveRegionshapiroAcceptorshapiroDensityshapiroDonorsplitPCRhit

Dependencies:abindAnnotationDbiAnnotationFilteraskpassbackportsbase64encBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtBiostringsbiovizBasebitbit64bitopsblobBSgenomeBSgenome.Mmusculus.UCSC.mm9bslibcachemcheckmatecliclustercodetoolscolorspacecpp11crayoncurldata.tableDBIdbplyrDelayedArraydeldirdichromatdigestdplyrensembldbevaluatefansifarverfastmapfilelockfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegoogleVisgridExtragtableGvizhighrHmischmshtmlTablehtmltoolshtmlwidgetshttrhttr2interpIRangesisobandjpegjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlatticelatticeExtralazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmennetopensslpillarpkgconfigplogrplyrpngprettyunitsprogressProtGenericspurrrpwalignR6rappdirsRColorBrewerRcppRcppEigenRCurlrestfulrRhtslibrjsonrlangrmarkdownrpartRsamtoolsRSQLiterstudioapirtracklayerS4ArraysS4VectorssassscalesseqLogosnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytexUCSC.utilsutf8VariantAnnotationvctrsviridisviridisLitewithrxfunXMLxml2XVectoryamlzlibbioc