GenomicFiles
This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see GenomicFiles.
Distributed computing by file or by range
Bioconductor version: 3.7
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]
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
citation("GenomicFiles")):
Installation
To install this package, start R (version "3.5") 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")| Introduction to GenomicFiles | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| Reading from a BAM file - Part 2 | Video |
Details
| biocViews | Coverage, DataImport, Genetics, Infrastructure, Sequencing, Software |
| Version | 1.16.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (10 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.1.0), methods, BiocGenerics(>= 0.11.2), 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, GenomeInfoDb |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, RUnit, genefilter, deepSNV, RNAseqData.HNRNPC.bam.chr14, Biostrings, Homo.sapiens |
| Linking To | |
| Enhances | |
| Depends On Me | erma |
| Imports Me | CAGEfightR, contiBAIT, derfinder, gQTLBase, gQTLstats, ldblock, QuasR, Rqc, TFutils, yriMulti |
| Suggests Me | TxRegInfra |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GenomicFiles_1.16.0.tar.gz |
| Windows Binary | GenomicFiles_1.16.0.zip |
| Mac OS X 10.11 (El Capitan) | GenomicFiles_1.16.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GenomicFiles |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GenomicFiles |
| Package Short Url | https://bioconductor.org/packages/GenomicFiles/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.7 | Source Archive |