mirror of
https://github.com/Ponce/slackbuilds
synced 2024-12-02 13:04:42 +01:00
b93bc3c89b
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
|
|
|
|
CAFS is a simple and fast method for Clustering functionally divergent
|
|
(FD) genes by Functional Category.
|
|
|
|
The method implemented in CAFS is one of several sequence-based
|
|
methods for identifying the 'interesting' subset of substitutions
|
|
that might underpin functional divergence. These methods are based
|
|
on the idea of that functionally-important residues are highly
|
|
conserved, so that evolutionary rates tend to be low at important
|
|
sites. Functional divergence can then be identified by comparing
|
|
rates (or levels of conservation) between two clades of proteins at
|
|
a homologous site. Alternatively, a significant change in amino acid
|
|
identity (such as a large, positively-charged residue in one group of
|
|
sequences versus a small, neutral residue in the other) could indicate
|
|
functional divergence even without a change in rate.
|
|
|
|
This program analyses alignments and provides the user with the best
|
|
putative sites under functional divergence.
|
|
|
|
NOTE: This only repackages the 64bit binary provided from upstream. A
|
|
32bit executable is not available.
|
|
|
|
Citing:
|
|
Caffrey BE, Williams TA, Jiang X, Toft C, Hokamp K, Fares MA (2011).
|
|
Proteome-wide analysis of functional divergence in bacteria: Exploring a
|
|
host of ecological adaptations.
|