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Signed-off-by: B. Watson <yalhcru@gmail.com> Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
27 lines
1.3 KiB
Text
27 lines
1.3 KiB
Text
CAFS: Clustering Analysis of Functional Shifts
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CAFS is a simple and fast method for Clustering functionally divergent
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(FD) genes by Functional Category.
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The method implemented in CAFS is one of several sequence-based
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methods for identifying the 'interesting' subset of substitutions
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that might underpin functional divergence. These methods are based
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on the idea of that functionally-important residues are highly
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conserved, so that evolutionary rates tend to be low at important
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sites. Functional divergence can then be identified by comparing
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rates (or levels of conservation) between two clades of proteins at
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a homologous site. Alternatively, a significant change in amino acid
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identity (such as a large, positively-charged residue in one group of
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sequences versus a small, neutral residue in the other) could indicate
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functional divergence even without a change in rate.
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This program analyses alignments and provides the user with the best
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putative sites under functional divergence.
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NOTE: This only repackages the 64bit binary provided from upstream. A
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32bit executable is not available.
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Citing:
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Caffrey BE, Williams TA, Jiang X, Toft C, Hokamp K, Fares MA (2011).
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Proteome-wide analysis of functional divergence in bacteria: Exploring a
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host of ecological adaptations.
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