recipe mvp

detect creation/destruction of sequence motifs as a result of mutations

Homepage

https://gitlab.com/LPCDRP/motif-variants

License

GPLv3+

Recipe

/mvp/meta.yaml

Sequence variation may cause the appearance or disappearance of certain motifs. Since motifs can be recognition sites for biological functions such as regulation or DNA modification, their gain and loss can have additional consequences. Using a list of variants in variant call format, the corresponding reference sequence, and a set of motifs to search for,mvp (motif-variant probe) identifies variants responsible for changing the number of occurrences of these motifs in the sequence. mvp can process both nucleotide and amino acid sequences.

package mvp

(downloads) docker_mvp

Versions

0.4.3-1, 0.4.3-0, 0.4.1-1, 0.4.1-0

Depends biopython

Depends pysam

>=0.8.4

Depends python

Requirements

Installation

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

conda install mvp

and update with:

conda update mvp

or use the docker container:

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

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