#______________________________________________________________________________ # 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