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rje_aaprop V0.2.0

AA Property Matrix Module

Module: rje_aaprop
Description: AA Property Matrix Module
Version: 0.2.0
Last Edit: 09/04/15

Copyright © 2005 Richard J. Edwards - See source code for GNU License Notice


Imported modules: rje


See SLiMSuite Blog for further documentation. See rje for general commands.

Function

Takes an amino acid property matrix file and reads into an AAPropMatrix object. Converts in an all by all property difference matrix. By default, gaps and Xs will be given null properties (None) unless part of input file.

Commandline

aaprop=FILE : Amino Acid property matrix file. [aaprop.txt]
aagapdif=X : Property difference given to amino acid vs gap comparisons [5]
aanulldif=X : Property difference given to amino acid vs null values (e.g. X) [0.5]


© 2015 RJ Edwards. Contact: richard.edwards@unsw.edu.au.