- recipe cistrome-ceas
Cistrome-CEAS -- Cis-regulatory Element Annotation System
- Homepage:
https://bitbucket.org/cistrome/cistrome-applications-harvard/overview
- Documentation:
- Developer docs:
https://bitbucket.org/cistrome/cistrome-applications-harvard
- License:
Artistic Licence
- Recipe:
Tool to characterize genome-wide protein-DNA interaction patterns from ChIP-chip and ChIP-Seq of both sharp and broad binding factors
- package cistrome-ceas¶
-
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install cistrome-ceas
and update with:
conda update cistrome-ceas
or use the docker container:
docker pull quay.io/biocontainers/cistrome-ceas:<tag>
(see cistrome-ceas/tags for valid values for
<tag>
)
Notes¶
Installs version 1.0.2 of CEAS from cistrome (commit id d8c0751, datestamp 20140929), which includes ceasBW (a version of ceas which can handle bigWig file input from MACS2). This version is also patched to suppress warnings about using sqlite3 rather than MySQLdb. The Cistrome code is at https://bitbucket.org/cistrome/cistrome-applications-harvard/overview The CEAS code is under the published-packages/CEAS/ subdirectory Cistrome data files and documentation can be found at http://liulab.dfci.harvard.edu/CEAS/index.html
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