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| author |   B. Watson | 2020-10-08 22:46:13 +0200 |
|---|---|---|
| committer |   Willy Sudiarto Raharjo | 2020-10-17 04:36:33 +0200 |
| commit | b93bc3c89b295981b9131a6aced3c0948c328e6b (patch) | |
| tree | 2880c2c2fd32f7cbf1e8bd6ef7d4716d299e4e59 /academic | |
| parent | 5e041d152ccde328f30c4ae88934e6b8593059c6 (diff) | |
| download | slackbuilds-b93bc3c89b295981b9131a6aced3c0948c328e6b.tar.gz | |
academic/CAFS_divergence: Fix README.
Signed-off-by: B. Watson <yalhcru@gmail.com>
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/CAFS_divergence/README | 29 |
1 files changed, 15 insertions, 14 deletions
diff --git a/academic/CAFS_divergence/README b/academic/CAFS_divergence/README index 9320c24786..61ae3acb06 100644 --- a/academic/CAFS_divergence/README +++ b/academic/CAFS_divergence/README @@ -1,24 +1,25 @@ CAFS: Clustering Analysis of Functional Shifts -CAFS is a simple and fast method for Clustering functionally divergent (FD) -genes by Functional Category. +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. +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. +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). |