NAME
gt-seq - Parse the given sequence file(s) and construct the corresponding index files.
SYNOPSIS
gt seq [option …] sequence_file […]
DESCRIPTION
- -recreate [yes|no]
-
recreate index files, even if they exist already (default: no)
- -showfasta [yes|no]
-
show all sequences (in FASTA format) (default: no)
- -showseqnum [value]
-
show sequence with given number (sequences are counted from 1 unless -seqnum_from_0 is specified) (default: undefined)
- -showseqlength [value]
-
show length of sequence with given number (sequences are counted from 1 unless -seqnum_from_0 is specified) (default: undefined)
- -showseqnum_inputfile [filename]
-
show sequence with given numbers specified line by line in given file (sequences are counted from 1 unless -seqnum_from_0 is specified) (default: undefined)
- -seqnum_from_0 [yes|no]
-
for options -showseqnum and -showseqnum_inputfile: count sequence numbers from 0 instead of 1 (default: no)
- -gc-content [yes|no]
-
print GC-content (for DNA files) (default: no)
- -stat [yes|no]
-
show sequence statistics (default: no)
- -seqlengthdistri [yes|no]
-
show sequence length distribution (default: no)
- -width [value]
-
set output width for FASTA sequence printing (0 disables formatting) (default: 0)
- -o [filename]
-
redirect output to specified file (default: undefined)
- -gzip [yes|no]
-
write gzip compressed output file (default: no)
- -bzip2 [yes|no]
-
write bzip2 compressed output file (default: no)
- -force [yes|no]
-
force writing to output file (default: no)
- -help
-
display help and exit
- -version
-
display version information and exit
REPORTING BUGS
Report bugs to https://github.com/genometools/genometools/issues.