conservation-code 20110309.0-8 source package in Ubuntu
Changelog
conservation-code (20110309.0-8) unstable; urgency=medium
* Rename test dir in autopktest from ADTTMP to AUTOPKGTEST_TMP
* Use 2to3 to port from Python2 to Python3
Closes: #942925
* debhelper-compat 12
* Standards-Version: 4.4.1
* Remove trailing whitespace in debian/changelog
* Do not parse d/changelog
* Trim trailing whitespace.
* Use secure URI in Homepage field.
* Remove obsolete fields Contact, Name from debian/upstream/metadata.
* Remove unnecessary get-orig-source-target.
-- Andreas Tille <email address hidden> Sun, 15 Dec 2019 16:24:28 +0100
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- all
- Section:
- misc
- Urgency:
- Medium Urgency
Downloads
| File | Size | SHA-256 Checksum |
|---|---|---|
| conservation-code_20110309.0-8.dsc | 2.1 KiB | 539c0ea875f2d4c0bbb6bdabf35af4bb9e3ebbb382bf006c52962972d7341f07 |
| conservation-code_20110309.0.orig.tar.xz | 19.1 KiB | caef16e54abe983d591721aef34fa5f0fc051d1f2fce9ac5637a3681be37a993 |
| conservation-code_20110309.0-8.debian.tar.xz | 13.8 KiB | 0576bde4fc2db5f9392acbde9f025d8e225a3bda170a006d8c1d2818f438cf2c |
Available diffs
- diff from 20110309.0-7 to 20110309.0-8 (7.8 KiB)
No changes file available.
Binary packages built by this source
- conservation-code: protein sequence conservation scoring tool
This package provides score_conservat
ion(1), a tool to score protein sequence
conservation.
.
The following conservation scoring methods are implemented:
* sum of pairs
* weighted sum of pairs
* Shannon entropy
* Shannon entropy with property groupings (Mirny and Shakhnovich 1995,
Valdar and Thornton 2001)
* relative entropy with property groupings (Williamson 1995)
* von Neumann entropy (Caffrey et al 2004)
* relative entropy (Samudrala and Wang 2006)
* Jensen-Shannon divergence (Capra and Singh 2007)
.
A window-based extension that incorporates the estimated conservation of
sequentially adjacent residues into the score for each column is also given.
This window approach can be applied to any of the conservation scoring
methods.
.
The program accepts alignments in the CLUSTAL and FASTA formats.
.
The sequence-specific output can be used as the conservation input for
concavity.
.
Conservation is highly predictive in identifying catalytic sites and
residues near bound ligands.
