NAME¶

xtractore - extract sequences corresponding to annotated features from the given sequence file

SYNOPSIS¶

xtractore [options] features.gff3 sequences.fasta

DESCRIPTION¶

Options:

-d|--debug

print debugging output

-h|--help

print this help message and exit

-i|--idfile: FILE

file containing a list of feature IDs (1 per line with no spaces); if provided, only features with IDs in this file will be extracted

-o|--outfile: FILE

file to which output sequences will be written; default is terminal (stdout)

-t|--type: STRING

feature type to extract; can be used multiple times to extract features of multiple types

-v|--version

print version number and exit

-V|--verbose

print verbose warning and error messages

-w|--width: INT

width of each line of sequence in the Fasta output; default is 80; set to 0 for no formatting