prottest 3.4.2+dfsg-5 source package in Ubuntu
Changelog
prottest (3.4.2+dfsg-5) unstable; urgency=medium
* Team upload
[ Andreas Tille ]
* Minor nitpicking change to silence lintian
* Standards-Version: 4.5.1 (routine-update)
[ Tassia Camoes Araujo ]
* Add functional test
Unfortunately we can only do a superficial for the moment until there
will be a way to run with phyml provided in Debian (see
https://github.com/ddarriba/prottest3/issues/12 )
[ Pierre Gruet ]
* Adding libbetter-appframework-java in runtime dependencies and its
jar in the manifest
-- Tássia Camões Araujo <email address hidden> Sun, 21 Feb 2021 11:33:45 +0100
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- all
- Section:
- misc
- Urgency:
- Medium Urgency
See full publishing history Publishing
| Series | Published | Component | Section |
|---|
Downloads
| File | Size | SHA-256 Checksum |
|---|---|---|
| prottest_3.4.2+dfsg-5.dsc | 2.1 KiB | 2e1ccd427d8061a033c3d758fa11ad08165c6d71619d4b12ccac074b60ada745 |
| prottest_3.4.2+dfsg.orig.tar.xz | 249.0 KiB | b2cfcb76e40ada8b00b36c83e81c6af7df2f9f11d7556e6e1501e4f76b4add36 |
| prottest_3.4.2+dfsg-5.debian.tar.xz | 6.7 KiB | 334342e97f7450d09ff61c9bbf184321f30364015ae379f167844000b27143bd |
Available diffs
- diff from 3.4.2+dfsg-4 to 3.4.2+dfsg-5 (1.8 KiB)
No changes file available.
Binary packages built by this source
- prottest: selection of best-fit models of protein evolution
PROTTEST (ModelTest's relative) is a program for selecting the model of
protein evolution that best fits a given set of sequences (alignment).
This java program is based on the Phyml program (for maximum likelihood
calculations and optimization of parameters) and uses the PAL library as
well. Models included are empirical substitution matrices (such as WAG,
LG, mtREV, Dayhoff, DCMut, JTT, VT, Blosum62, CpREV, RtREV, MtMam,
MtArt, HIVb, and HIVw) that indicate relative rates of amino acid
replacement, and specific improvements (+I:invariable sites, +G: rate
heterogeneity among sites, +F: observed amino acid frequencies) to
account for the evolutionary constraints impossed by conservation of
protein structure and function. ProtTest uses the Akaike Information
Criterion (AIC) and other statistics (AICc and BIC) to find which of the
candidate models best fits the data at hand.
