blast_blastp
Description¶
BLASTP (Basic Local Alignment Search Tool- Protein) compares an amino acid (protein) query sequence against a protein database
Installation¶
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install blast/blastp
Tools¶
blast¶
BLAST+ is a new suite of BLAST tools that utilizes the NCBI C++ Toolkit.
- blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=Blastdocs
- 10.1016/S0022-2836(05)80360-2
- [, ', U, S, -, G, o, v, e, r, n, m, e, n, t, -, W, o, r, k, ', ]
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
- |
fasta |
file | Input fasta file containing queries sequences | *.{fa,fasta,fa.gz,fasta.gz} |
db |
directory | Directory containing blast database | * |
out_ext |
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 |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
- |
xml |
file | File containing blastp hits in XML format | *.{xml} |
tsv |
file | File containing blastp hits in tabular format | *.{tsv} |
csv |
file | File containing blastp hits in comma separated format | *.csv |
versions |
file | File containing software versions | versions.yml |
