mirror of
https://github.com/Ponce/slackbuilds
synced 2024-11-21 19:42:24 +01:00
25 lines
1.1 KiB
Text
25 lines
1.1 KiB
Text
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.
|
|
|
|
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
|