recipe epicseg

EpiCSeg (Epigenome Count-based Segmentation) is a software for annotating the genome based on the state of the chromatin. It provides tools for extracting count data from BAM files, typlically corresponding to ChIP-seq experiments for histone marks (but other choices are possible) it learns a statistical model for the read counts based on a HMM, it annotates the genome, and it provides tools for displaying and analyzing the obtained models and segmentations. EpiCSeg can be used as an R package or from the command line via Rscript.

Homepage:

http://github.com/lamortenera/epicseg

License:

GPL-3

Recipe:

/epicseg/meta.yaml

package epicseg

Versions:

1.0-7,  1.0-6,  1.0-5,  1.0-4,  1.0-3,  1.0-2,  1.0-1,  1.0-0

Depends:

• bioconductor-bamsignals

• bioconductor-edger

• bioconductor-genomicranges

• bioconductor-iranges

• bioconductor-s4vectors

• kfoots

• libgcc-ng >=12

• r-base >=4.2,<4.3.0a0

• r-rcolorbrewer

• r-rcpp >=0.10.6

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install epicseg

and update with:

conda update epicseg

or use the docker container:

docker pull quay.io/biocontainers/epicseg:<tag>

(see epicseg/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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