HelloRanges
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see HelloRanges.
Introduce *Ranges to bedtools users
Bioconductor version: 3.9
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("HelloRanges")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HelloRanges")
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("HelloRanges")| HelloRanges Tutorial | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, Coverage, DataImport, GenomeAnnotation, SequenceMatching, Sequencing, Software, VariantAnnotation |
| Version | 1.10.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 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 |
| System Requirements | |
| URL |
See More
| Suggests | HelloRangesData, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | OMICsPCA |
| Suggests Me | plyranges |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HelloRanges_1.10.0.tar.gz |
| Windows Binary | HelloRanges_1.10.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | HelloRanges_1.10.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HelloRanges |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HelloRanges |
| Bioc Package Browser | https://code.bioconductor.org/browse/HelloRanges/ |
| Package Short Url | https://bioconductor.org/packages/HelloRanges/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |