NAME

       transformseq - convert multiple sequence alignments from one format to another

SYNOPSIS

       transformseq [options]  < sequence_data.fa > sequence_logo.eps

DESCRIPTION

              A tool for converting multiple sequence alignments from one format to

       another.

OPTIONS

       --version
              show program's version number and exit

       -h --help
              show this help message and exit

              Input/Output Options:

       -f --fin FILENAME
              Sequence input file (default: stdin)

       --format-in FORMAT
              Multiple  sequence  alignment  format:  (clustal, fasta, plain, msf, genbank, nbrf,
              nexus, phylip, stockholm, intelligenetics, table, array)

       -o --fout FILENAME
              Output file (default: stdout)

       -F --format-out FORMAT
              Multiple sequence alignment output format: (clustal, fasta, plain, intelligenetics,
              table, array) (Default: fasta)

              Transformations:

       --seg  Mask low complexity regions in protein sequences.

       --subsample FRACTION
              Return a random subsample of the sequences.

       --reverse
              reverse sequences

       --complement
              complement DNA sequences