This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see HelloRanges.
Bioconductor version: 3.8
Translates bedtools command-line invocations to R code calling functions from the Bioconductor *Ranges infrastructure. This is intended to educate novice Bioconductor users and to compare the syntax and semantics of the two frameworks.
Author: Michael Lawrence
Maintainer: Michael Lawrence <michafla at gene.com>
Citation (from within R,
enter citation("HelloRanges")
):
To install this package, start R (version "3.5") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("HelloRanges")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HelloRanges")
R Script | HelloRanges Tutorial | |
Reference Manual | ||
Text | NEWS |
biocViews | Annotation, Coverage, DataImport, GenomeAnnotation, SequenceMatching, Sequencing, Software, VariantAnnotation |
Version | 1.8.0 |
In Bioconductor since | BioC 3.4 (R-3.3) (2.5 years) |
License | GPL (>= 2) |
Depends | methods, BiocGenerics, S4Vectors(>= 0.17.39), IRanges(>= 2.13.12), GenomicRanges(>= 1.31.10), Biostrings(>= 2.41.3), BSgenome, GenomicFeatures(>= 1.31.5), VariantAnnotation(>= 1.19.3), Rsamtools, GenomicAlignments(>= 1.15.7), rtracklayer(>= 1.33.8), GenomeInfoDb, SummarizedExperiment |
Imports | docopt, stats, tools, utils |
LinkingTo | |
Suggests | HelloRangesData, BiocStyle |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | OMICsPCA |
Suggests Me | plyranges |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | HelloRanges_1.8.0.tar.gz |
Windows Binary | HelloRanges_1.8.0.zip |
Mac OS X 10.11 (El Capitan) | HelloRanges_1.8.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/HelloRanges |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HelloRanges |
Package Short Url | http://bioconductor.org/packages/HelloRanges/ |
Package Downloads Report | Download Stats |
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