NAME

       geneparse - sequence file loader frontend

SYNAPSE

       geneparse [options...] [input] [input2 ...] #read input and write to stdout

DESCRIPTION

       Reads a sequence file and writes it somewhere (by default to stdout).

       A specific range within an input file can be specified by file[start,stop].  The square
       brackets can be interchanged for any of {[()]}, (eg.  "genome.fa[3000,4000]" or
       "genome.fa{3000~4000}").  Be aware that all of those might be parsed by your shell.  Also
       any non-word character can be used to separate the numbers.

OPTIONS

       --repeatmask|-r
           use soft-repeatmasked sequences (ie: replace lowercase bases with N's).

       --upper|--unmask|-U
            uppercase all bases.

       --length|-l
           just print the length and exit

       --clean|-c
           don't append a new line when finished

       --version|-V
           prints the program version

       --help|-h
           prints a help message

       --output|-o
           send output to a file (otherwise use stdout). --output implies --clean.

       --quiet|-q
           silence all warnings

       --verbose|-v
           prints lots of extra details

LICENSE

       GNU General Public License, version 3 (GPLv3)

AVAILABILITY

       <http://murasaki.sourceforge.net>

AUTHOR

       Kris Popendorf <krisp@dna.bio.keio.ac.jp>

SEE ALSO

       murasaki(1), geneparse(1)