bionic (1) pbsEncode.1.gz

NAME

       pbsEncode - Produce an approximate binary encoding of a probabilistic

DESCRIPTION

       Produce an approximate binary encoding of a probabilistic biological sequence (PBS), as defined by a text
       file ("input.probs") with a row for each position in the sequence  and  a  column  for  each  base.   The
       (i,j)th  value  in  this  table  should  be  the  probability of base j at position i.  Columns should be
       white-space delimited.  The encoding will be as defined by "codefile", which should be in the format used
       by pbsTrain.

       This program performs the inverse function of pbsDecode.

EXAMPLE

       Encode  the  probabilities  in  a  file  "anc.human-mouse.probs",  produced by prequel, using a code file
       "mammals.code", produced by pbsTrain.  pbsEncode anc.human-mouse.probs mammals.code > anc.human-mouse.bin

OPTIONS

       --discard-gaps, -G

       Discard gaps in the PBS.
              Gaps in the input data are assumed

              to be represented by rows consisting of a single "-" character.

       --help, -h Produce this help message.