NAME
pyfastx - fast random access to sequences from FASTA/Q file
DESCRIPTION
usage: pyfastx COMMAND [OPTIONS]
A command line tool for FASTA/Q file manipulation
options:
- -h, --help
-
show this help message and exit
- -v, --version
-
show program's version number and exit
Commands:
- index
-
build index for fasta/q file
- stat
-
show detailed statistics information of fasta/q file
- split
-
split fasta/q file into multiple files
- fq2fa
-
convert fastq file to fasta file
- subseq
-
get subsequences from fasta file by region
- sample
-
randomly sample sequences from fasta or fastq file
- extract
-
extract full sequences or reads from fasta/q file
SEE ALSO
Each subcommand has its own on line help, which can be queried for instance with:
$ pyfastx index --help usage: pyfastx index [-h] [-f] fastx [fastx ...] positional arguments: fastx fasta or fastq file, gzip support options: -h, --help show this help message and exit -f, --full build full index, base composition will be calculated
Look up /usr/share/doc/pyfast/README.rst for more complete documentation.