#______________________________________________________________________________
# Title     : geanfammer REAME file
# Usage     :
# Function  : breaks down protein sequences into domains
# Example   :
# Keywords  :
# Options   :
# Author    : jong@bio.cc,
# Category  :
# Returns   :
# Version   : 3.3
#------------------------------------------------------------------------------

  To test geanfammer.pl   type:

  geanfammer.pl geanfammer_test_FASTA_DB.fa

  in ./Test  directory.


The default is to run 'fasta' program which should be in your exe PATH in Linux.
 (for Linux, FASTA and SSEARCH programs are in ./Bin directory).


  geanfammer.pl geanfammer_test_FASTA_DB.fa a=b

will run Blastpgp(PSI blast) if it is in the PATH.


  geanfammer.pl geanfammer_test_FASTA_DB.fa a=b e=0.0001

Will run Blastpgp (PSI blast) with step evalue threshold of 0.0001





jong@biosophy.org