This program takes the output from a scan, and cleans and sorts the
output. It removes repeated transformations by a simple least
squares comparison of the matrices and vectors for those
transformations which have the same identifier.
The format is:
sorttrans -f <scan output file> -s <keyword> <cutoff> [-t -i]
-f reads output from STAMP scanning, -s tells the program how to
sort the output. The keyword tells which method to use. There
are 8 possible keywords:
Sc sort by Sc rms RMS deviaition nfit number of fitted atoms len alignment length frac nfit/len q_frac nfit/q_len (q_len = length of query structure) d_frac nfit/d_len (d_len = length of database structure) n_sec number of equivalent secondary structure elements seq_id percent sequence identity sec_id percent secondary structure identity
sorted transformations are written to the standard output.
The option -i ==> identifiers only. Consider only the best transformation per identifier.
The option -n ==> ignore domain descriptors. This means that only the filename and the transformations are used. This is useful if you have different domain names attributed to the same region of the structure. Why I put this in I can't remember, but it must have been useful for something.