Package: GenomicScores 2.19.0

Robert Castelo

GenomicScores: Infrastructure to work with genomewide position-specific scores

Provide infrastructure to store and access genomewide position-specific scores within R and Bioconductor.

Authors:Robert Castelo [aut, cre], Pau Puigdevall [ctb], Pablo Rodríguez [ctb]

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GenomicScores.pdf |GenomicScores.html✨
GenomicScores/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/rcastelo/genomicscores/issues

On BioConductor:GenomicScores-2.19.0(bioc 3.21)GenomicScores-2.18.0(bioc 3.20)

infrastructuregeneticsannotationsequencingcoverageannotationhubsoftware

8.70 score 8 stars 6 packages 83 scripts 1.2k downloads 2 mentions 32 exports 73 dependencies

Last updated 2 months agofrom:51c4e651cf. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 18 2024
R-4.5-winNOTEDec 18 2024
R-4.5-linuxNOTEDec 18 2024
R-4.4-winNOTEDec 18 2024
R-4.4-macNOTEDec 18 2024
R-4.3-winNOTEDec 18 2024
R-4.3-macNOTEDec 18 2024

Exports:availableGScorescitationdefaultPopulationdefaultPopulation<-dqfungetGScoresgscoresGScoresgscoresCategorygscoresCategory<-gscoresNonSNRsgscoresTaggscoresTag<-igscoresmakeGScoresPackagenamensitesorganismpopulationsproviderproviderVersionqfunrgscoresscorescoresseqinfoseqlengthsseqlevelsStyleseqnamesshowtypewgscores

Dependencies:abindAnnotationDbiAnnotationHubaskpassBiobaseBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobcachemclicpp11crayoncurlDBIdbplyrDelayedArraydplyrfansifastmapfilelockgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesglueHDF5ArrayhttrIRangesjsonliteKEGGRESTlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigplogrpngpurrrR6rappdirsrhdf5rhdf5filtersRhdf5librlangRSQLiteS4ArraysS4VectorsSparseArraystringistringrsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXMLXVectoryamlzlibbioc

An introduction to the GenomicScores package

Pau Puigdevall, Robert Castelo

Rendered fromGenomicScores.Rmdusingknitr::rmarkdownon Dec 18 2024.

Last update: 2024-04-02
Started: 2017-04-07

Readme and manuals

Help Manual

Help pageTopics
Exploring genomic scores resourcesavailableGScores getGScores
Accessing genomic gscoresgscores gscores,GScores,character-method gscores,GScores,GenomicRanges-method score,GScores-method
GScores objectscitation citation,character-method citation,GScores-method citation,missing-method class:GScores defaultPopulation defaultPopulation,GScores-method defaultPopulation<- defaultPopulation<-,GScores,character-method dqfun dqfun,GScores-method GenomicScores GScores GScores-class gscoresCategory gscoresCategory,GScores-method gscoresCategory<- gscoresCategory<-,GScores,character-method gscoresNonSNRs gscoresNonSNRs,GScores-method gscoresTag gscoresTag,GScores-method gscoresTag<- gscoresTag<-,GScores,character-method name name,GScores-method nsites nsites,GScores-method organism,GScores-method populations populations,GScores-method provider,GScores-method providerVersion,GScores-method qfun qfun,GScores-method seqinfo,GScores-method seqlengths,GScores-method seqlevelsStyle,GScores-method seqnames,GScores-method show,GScores-method type type,GScores-method
GenomicScores shiny appigscores
Building genomic gscores packagesmakeGScoresPackage
Sampling genomic gscoresrgscores rgscores,GScores,missing-method rgscores,integer,GScores-method rgscores,missing,GScores-method rgscores,numeric,GScores-method
Discovering genomic gscoreswgscores wgscores,GScores,GenomicRanges-method