recipe spanki

Spanki is a set of tools to facilitate analysis of alternative splicing from RNA-Seq data. Spanki compiles quantitative and qualitative information about junction alignments from input BAM files, and analyzes junction-level splicing along with pairwise-defined splicing events. A simulator is also included to evaluate junction detection performance.

Homepage

http://www.cbcb.umd.edu/software/spanki/

License

GPLv3

Recipe

/spanki/meta.yaml

package spanki

(downloads) docker_spanki

Versions

0.5.1-1, 0.5.1-0

Depends biopython

Depends cufflinks

Depends fisher

Depends numpy

Depends pyfasta

Depends pysam

Depends python

>=2.7,<2.8.0a0

Depends samtools

Depends statsmodels

Requirements

Installation

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

conda install spanki

and update with:

conda update spanki

or use the docker container:

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

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