repseqio fasta

Exports sequences of genes to fasta file.

Usage:

repseqio fasta [-f] \
    [--chain <chain>] \
    [--gene-feature <geneFeature>] \
    [--imgt] \
    [--name <regexp>] \
    [--species <species>] \
    [--taxon-id <id>] \
    input_library.json|default \
    [output.fasta]

Command line options:

-f, --force (default: does not overwrite)

Force overwrite of output file(s).

-c, --chain <chain>

Chain pattern, regexp string, all genes with matching chain record will be exported.

-g, --gene-feature <geneFeature>

Gene feature to export (e.g. VRegion, JRegion, VTranscript, etc...)

--imgt

Format output similar to IMGT's reference (add IMGT gaps, similar header structure))

-n, --name <regexp>

Gene name pattern, regexp string, all genes with matching gene name will be exported.

-s, --species <species>

Species name, used in the same way as --taxon-id.

-t, --taxon-id <id>

Taxon id (filter multi-library file to leave single library for specified taxon id)