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  • Title: CAPS: coevolution analysis using protein sequences.
    Author: Fares MA, McNally D.
    Journal: Bioinformatics; 2006 Nov 15; 22(22):2821-2. PubMed ID: 17005535.
    Abstract:
    UNLABELLED: Coevolution Analysis using Protein Sequences (CAPS) is a PERL based software that identifies co-evolution between amino acid sites. Blosum-corrected amino acid distances are used to identify amino acid co-variation. The phylogenetic sequence relationships are used to remove the phylogenetic and stochastic dependencies between sites. The 3D protein structure is used to identify the nature of the dependencies between co-evolving amino acid sites. Friendly interpretable output files are generated. AVAILABILITY: CAPS version 1 is available at http://bioinf.gen.tcd.ie/~faresm/software/caps/. Distribution versions for Linux/Unix, Mac OS X and Windows operating systems are available, including manual and example files.
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