recipe r-shazam

Provides a computational framework for analyzing mutations in immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of antigen-driven selection pressure, mutational load quantification, building of somatic hypermutation (SHM) models, and model-dependent distance calculations. Also includes empirically derived models of SHM for both mice and humans. Citations: Gupta and Vander Heiden, et al (2015) <doi:10.1093/bioinformatics/btv359>, Yaari, et al (2012) <doi:10.1093/nar/gks457>, Yaari, et al (2013) <doi:10.3389/fimmu.2013.00358>, Cui, et al (2016) <doi:10.4049/jimmunol.1502263>.

Homepage

http://shazam.readthedocs.io

License

CC / CC BY-SA 4.0

Recipe

/r-shazam/meta.yaml

package r-shazam

(downloads) docker_r-shazam

Versions

0.2.1-1, 0.2.1-0, 0.1.11-0, 0.1.10-1, 0.1.10-0, 0.1.9-2

Depends
Required By

Installation

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

conda install r-shazam

and update with:

conda update r-shazam

or use the docker container:

docker pull quay.io/biocontainers/r-shazam:<tag>

(see r-shazam/tags for valid values for <tag>)