xtractore - extract sequences corresponding to annotated features
from the given sequence file
xtractore [options] features.gff3
sequences.fasta
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