recipe fusioncatcher

Finder of Somatic Fusion Genes in RNA-seq data.

Homepage

https://github.com/ndaniel/fusioncatcher

License

GPL / GPL-3.0

Recipe

/fusioncatcher/meta.yaml

Links

doi: 10.1101/011650

package fusioncatcher

(downloads) docker_fusioncatcher

Versions

1.00-1, 1.00-0

Depends bbmap

Depends biopython

>=1.50

Depends blat

35.*

Depends bowtie

1.2.0.*

Depends bowtie2

2.3.0.*

Depends bwa

0.7.12.*

Depends fusioncatcher-seqtk

1.2.*

Depends java-jdk

Depends lzo

>=2.10,<3.0a0

Depends lzop

Depends numpy

1.13.1.*

Depends oases

Depends openpyxl

2.5.0a2.*

Depends parallel

20171222.*

Depends picard

2.10.6.*

Depends pigz

2.3.*

Depends python

>=2.7,<2.8.0a0

Depends samtools

0.1.19.*

Depends sra-tools

2.6.2.*

Depends star

2.5.2b.*

Depends ucsc-fatotwobit

Depends ucsc-liftover

Depends velvet

1.2.10.*

Depends xlrd

1.0.0.*

Depends zip

Requirements

Installation

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

conda install fusioncatcher

and update with:

conda update fusioncatcher

or use the docker container:

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

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