chromhmm

downloads

ChromHMM is software for learning and characterizing chromatin states. ChromHMM can integrate multiple chromatin datasets such as ChIP-seq data of various histone modifications to discover de novo the major re-occuring combinatorial and spatial patterns of marks.

Home http://compbio.mit.edu/ChromHMM/
Versions 1.11, 1.12
License GPLv3
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/chromhmm

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install chromhmm

and update with:

conda update chromhmm

Notes

ChromHMM comes with about 36MB of example data which is not included in the recipe. This recipe installs a script, “download_chromhmm_data.sh”, which downloads the data in the proper location, and which can be run after ChromHMM has been installed.

docker

A Docker container is available at https://quay.io/repository/biocontainers/chromhmm.