help:

--version

show program's version number and exit

-h, --help

show this help message and exit

subcommands:

Conversion method

generic

Converts sequence headers without a known annotation system.

454

Converts Roche 454 sequence headers.

genbank

Converts NCBI GenBank and RefSeq sequence headers.

illumina

Converts Illumina sequence headers.

imgt

Converts sequence headers output by IMGT/GENE-DB.

migec

Converts headers for consensus sequence generated by the MIGEC tool.

sra

Converts NCBI SRA or EMBL-EBI ENA sequence headers.

output files:

convert-pass

reads passing header conversion.

convert-fail

raw reads failing header conversion.

output annotation fields:

<format defined>

the annotation fields added are specific to the header format of the input file.