Description

Queries a DIAMOND database using blastp mode

Input

Name
Description
Pattern

0 ()

1 ()

0 ()

1 ()

outfmt (integer)

Specify the type of output file to be generated. 0, .blast, BLAST pairwise format. 5, .xml, BLAST XML format. 6, .txt, BLAST tabular format (default). This format can be customized, the 6 may be followed by a space-separated list of the blast_columns keywords, each specifying a field of the output. 100, .daa, DIAMOND alignment archive (DAA). The DAA format is a proprietary binary format that can subsequently be used to generate other output formats using the view command. It is also supported by MEGAN and allows a quick import of results. 101, .sam, SAM format. 102, .tsv, Taxonomic classification. This format will not print alignments but only a taxonomic classification for each query using the LCA algorithm. 103, .paf, PAF format. The custom fields in the format are AS (bit score), ZR (raw score) and ZE (e-value).

0|5|6|100|101|102|103

blast_columns (string)

Optional space separated list of DIAMOND tabular BLAST output keywords used in conjunction with the --outfmt 6 option (txt). Options: qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue bitscore

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

Tools

diamond Documentation

Accelerated BLAST compatible local sequence aligner

https://github.com/bbuchfink/diamonddoi: 10.1038/s41592-021-01101-xLicense: GPL v3.0
nf-core pipelines with this module
blobtoolkit
Authors