GenomicState
This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see GenomicState.
Build and access GenomicState objects for use with derfinder tools from sources like Gencode
Bioconductor version: 3.15
This package contains functions for building GenomicState objects from different annotation sources such as Gencode. It also provides access to these files at JHPCE.
Author: Leonardo Collado-Torres [aut, cre] 
Maintainer: Leonardo Collado-Torres <lcolladotor at gmail.com>
citation("GenomicState")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GenomicState")
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("GenomicState")| Introduction to GenomicState | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, Homo_sapiens, TxDb |
| Version | 0.99.15 |
| License | Artistic-2.0 |
| Depends | AnnotationHub |
| Imports | GenomicFeatures, GenomeInfoDb, rtracklayer, bumphunter, derfinder(>= 1.21.7), AnnotationDbi, IRanges, org.Hs.eg.db, utils, methods |
| System Requirements | |
| URL | https://github.com/LieberInstitute/GenomicState |
| Bug Reports | https://support.bioconductor.org/t/GenomicState |
See More
| Suggests | knitr, rmarkdown, BiocStyle, sessioninfo, testthat (>= 2.1.0), glue, derfinderPlot, AnnotationHubData, RefManageR, GenomicRanges, covr |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | brainflowprobes, recountWorkflow |
| Suggests Me | dasper |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GenomicState_0.99.15.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| Package Short Url | https://bioconductor.org/packages/GenomicState/ |
| Package Downloads Report | Download Stats |