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Contents of README:CAPS: Coevolution Analysis using Protein Sequences CAPS is aimed at measuring the coevolution between amino acid sites belonging to the same protein (intra-molecular coevolution) or to two functionally or physically interacting proteins (inter-molecular coevolution). The Software implements an improved method to detect intra-molecular coevolution as published in Genetics (Fares and Travers, 2006) and also inter-protein coevolution analysis. The improved scoring of amino acid sites is obtained by maximum likelihood ancestral state reconstruction along with simulations to assess significance. In addition, a test which assesses whether two proteins are interacting is implemented. NOTE: The script just repackages the binaries provided from upstream. If you want to compile the program from source check "vCAPS_coevolution", which also comes with an unofficial patch that extends the verbosity of the results. CITING: CAPS: coevolution analysis using protein sequences. Fares MA, McNally D. Bioinformatics. 2006 Nov 15;22(22):2821-2. PMID: 17005535 The mathematical model has been described separately: A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses. Fares MA, Travers SA. Genetics. 2006 May;173(1):9-23. PMID: 16547113 |
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Parent Directory - CAPS_coevolution.SlackBuild 11-Mar-2022 06:34 3.3K CAPS_coevolution.info 03-Jun-2022 10:36 435 README 03-Jun-2022 10:36 1.3K References 03-Jun-2022 10:36 539 caps2-linux.zip 03-Jun-2022 10:36 3.0M slack-desc 03-Jun-2022 10:36 1.2K
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