recipe spaln

Map and align a set of cDNA/EST or protein sequences onto a genome

Homepage

http://www.genome.ist.i.kyoto-u.ac.jp/~aln_user/spaln/

Developer docs

https://github.com/ogotoh/spaln

License

GPL / GPL-2.0

Recipe

/spaln/meta.yaml

Links

doi: 10.1093/nar/gks708

Spaln (space-efficient spliced alignment) is a stand-alone program that maps and aligns a set of cDNA or protein sequences onto a whole genomic sequence in a single job. Spaln also performs spliced or ordinary alignment after rapid similarity search against a protein sequence database, if a genomic segment or an amino acid sequence is given as a query.

package spaln

(downloads) docker_spaln

Versions

2.3.3-0, 2.3.3c-0, 2.3.3b-0, 2.3.3a-0, 2.3.2-0

Depends libgcc-ng

>=7.3.0

Depends libstdcxx-ng

>=7.3.0

Depends perl

>=5.26.2,<5.26.3.0a0

Depends zlib

>=1.2.11,<1.3.0a0

Requirements

Installation

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

conda install spaln

and update with:

conda update spaln

or use the docker container:

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

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