Description

BLASTP (Basic Local Alignment Search Tool- Protein) compares an amino acid (protein) query sequence against a protein database

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

fasta{:bash}

:file

Input fasta file containing queries sequences

*.{fa,fasta,fa.gz,fasta.gz}

meta2{:bash}

:map

Groovy Map containing db information e.g. [ id:‘test2’, single_end:false ]

db{:bash}

:directory

Directory containing the blast database

*

out_ext{:bash}

:string

Specify the type of output file to be generated. xml corresponds to BLAST xml format. tsv corresponds to BLAST tabular format. csv corresponds to BLAST comma separated format.

xml|tsv|csv

Output

name:type
description
pattern

xml{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*.xml*{:bash}

:file

File containing blastp hits in XML format

*.{xml}

tsv{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*.tsv*{:bash}

:file

File containing blastp hits in tabular format

*.{tsv}

csv{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*.csv*{:bash}

:file

File containing blastp hits in comma separated format

*.csv

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

blast
US-Government-Work

BLAST+ is a new suite of BLAST tools that utilizes the NCBI C++ Toolkit.

blast.ncbi.nlm.nih.gov/Blast.cgi blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=Blastdocs 10.1016/S0022-2836(05)80360-2
maintainer
Github user vagkaratzas
get in touch
Ask a question on Slack Open an issue on GitHub