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Bioconductor - GenomicFiles

GenomicFiles

This is the released version of GenomicFiles; for the devel version, see GenomicFiles.

Distributed computing by file or by range

Bioconductor version: Release (3.21)

This package provides infrastructure for parallel computations distributed 'by file' or 'by range'. User defined MAPPER and REDUCER functions provide added flexibility for data combination and manipulation.

Author: Bioconductor Package Maintainer [aut, cre], Valerie Obenchain [aut], Michael Love [aut], Lori Shepherd [aut], Martin Morgan [aut], Sonali Kumari [ctb] (Converted 'GenomicFiles' vignettes from Sweave to RMarkdown / HTML.)

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Citation (from within R, enter citation("GenomicFiles")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("GenomicFiles")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("GenomicFiles")
Details biocViews Coverage, DataImport, Genetics, Infrastructure, Sequencing, Software Version 1.44.1 In Bioconductor since BioC 2.14 (R-3.1) (11 years) License Artistic-2.0 Depends R (>= 3.1.0), methods, BiocGenerics(>= 0.11.2), MatrixGenerics, GenomicRanges(>= 1.31.16), SummarizedExperiment, BiocParallel(>= 1.1.0), Rsamtools(>= 1.17.29), rtracklayer(>= 1.25.3) Imports GenomicAlignments(>= 1.7.7), IRanges, S4Vectors(>= 0.9.25), VariantAnnotation(>= 1.27.9), GenomeInfoDb System Requirements URL See More Suggests BiocStyle, RUnit, genefilter, deepSNV, snpStats, knitr, RNAseqData.HNRNPC.bam.chr14, Biostrings, Homo.sapiens Linking To Enhances Depends On Me erma, IntEREst Imports Me CAGEfightR, derfinder, gDNAx, QuasR, Rqc, TFutils, VCFArray Suggests Me ldblock, MungeSumstats Links To Me Build Report Build Report Package Archives

Follow Installation instructions to use this package in your R session.

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