add_germline_annotations

Convert IgLabel-style labels in a FASTA file to dummy IUIS format

usage: annotate_rearrangements [-h] [-f FIELDS] [-d] input_file germline_set output_file

Positional Arguments

input_file

Annotation file in TSV format

germline_set

Germline set in AIRR-C format

output_file

Extended annotation file in TSV format

Named Arguments

-f, --fields

add comma-separated fields to headers, e.g. release_version,aliases

-d, --distinct

where there are multiple calls, provide distinct values for each call, semicolon separated

Default: False