recipe oncotator

Oncotator is a tool for annotating human genomic point mutations and indels with data relevant to cancer researchers.

Homepage:

https://github.com/broadinstitute/oncotator

Documentation:

https://gatkforums.broadinstitute.org/gatk/categories/oncotator-documentation

License:

Custom OSS

Recipe:

/oncotator/meta.yaml

Links:

doi: 10.1002/humu.22771

package oncotator

Versions:

1.9.9.0-2,  1.9.9.0-1,  1.9.9.0-0

Depends:

• bcbio-gff 0.6.2

• biopython 1.66

• enum34 1.1.2

• futures

• libgcc-ng >=7.3.0

• more-itertools 2.2

• natsort 4.0.4

• numpy 1.11.0

• pandas 0.18.0

• pysam 0.9.0

• python >=2.7,<2.8.0a0

• python-memcached 1.57

• pyvcf 0.6.8

• shove 0.6.6

• sqlalchemy 1.0.12

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install oncotator

and update with:

conda update oncotator

or use the docker container:

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

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

Download stats

Link to this page

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