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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 (3.19)

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")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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:

Introduction to GenomicState HTML R Script
Reference Manual PDF


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
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_0.99.15.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Package Short Url https://bioconductor.org/packages/GenomicState/
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