recipe scanindel

ScanIndel is a python program to detect indels (insertions and deletions) from NGS data by re-align and de novo assemble soft clipped reads.

Homepage:https://github.com/cauyrd/ScanIndel License:GPL3 / GNU General Public License v3 or later (GPLv3+) Recipe:/scanindel/meta.yaml

package scanindel

Versions:

1.3-0

Depends:

• bedtools ==2.17.0
• biopython ==1.64
• blat
• bwa ==0.7.12
• freebayes ==0.9.21.7
• numpy
• pysam ==0.7.7
• python 2.7*
• pyvcf ==0.6.7
• samtools <=1.0
• scipy

Required By:

Installation

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

conda install scanindel

and update with:

conda update scanindel

or use the docker container:

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

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

Link to this page

Render an badge with the following MarkDown:

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