GenomicState

DOI: 10.18129/B9.bioc.GenomicState    

This is the development version of GenomicState; for the stable release version, see GenomicState.

Build and access GenomicState objects for use with derfinder tools from sources like Gencode

Bioconductor version: Development (3.12)

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 (from within R, enter citation("GenomicState")):

Installation

To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

HTML R Script Introduction to GenomicState
PDF   Reference Manual
Text   NEWS

Details

biocViews AnnotationData, AnnotationHub, Homo_sapiens, TxDb
Version 0.99.9
License Artistic-2.0
Depends AnnotationHub
Imports GenomicFeatures, GenomeInfoDb, rtracklayer, bumphunter, derfinder, AnnotationDbi, IRanges, org.Hs.eg.db, utils, methods
LinkingTo
Suggests knitr, rmarkdown, BiocStyle, knitcitations, sessioninfo, testthat (>= 2.1.0), glue, derfinderPlot, AnnotationHubData, RefManageR, GenomicRanges
SystemRequirements
Enhances
URL https://github.com/LieberInstitute/GenomicState
BugReports https://github.com/LieberInstitute/GenomicState/issues
Depends On Me
Imports Me brainflowprobes, recountWorkflow
Suggests Me
Links To Me

Package Archives

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

Source Package GenomicState_0.99.9.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Package Short Url https://bioconductor.org/packages/GenomicState/
Package Downloads Report Download Stats

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