Package: muscle
Version: 1:5.1.0-1build1
Architecture: amd64
Maintainer: Ubuntu Developers <ubuntu-devel-discuss@lists.ubuntu.com>
Original-Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 570
Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.3.1), libgomp1 (>= 4.9), libstdc++6 (>= 14)
Enhances: seaview, t-coffee
Conflicts: muscle-doc
Replaces: muscle-doc
Provides: muscle-doc
Section: science
Priority: optional
Homepage: https://www.drive5.com/muscle/
Description: Multiple alignment program of protein sequences
 MUSCLE is a multiple alignment program for protein sequences. MUSCLE
 stands for multiple sequence comparison by log-expectation. In the
 authors tests, MUSCLE achieved the highest scores of all tested
 programs on several alignment accuracy benchmarks, and is also one of
 the fastest programs out there.
 .
 Muscle v5 is a major re-write of MUSCLE based on new algorithms.
 .
 Users should be aware that command line arguments compared to version
 3.x of MUSCLE have changed!
 .
 Highest accuracy, scalable to thousands of sequences
 .
 Compared to previous versions, Muscle v5 is much more accurate, is often
 faster, and scales to much larger datasets. At the time of writing (late
 2021), Muscle v5 has the highest scores on multiple alignment benchmarks
 including Balibase, Bralibase, Prefab and Balifam. It can align tens of
 thousands of sequences with high accuracy on a low-cost commodity computer
 (say, an 8-core Intel CPU with 32 Gb RAM). On large datasets, Muscle v5
 is 20-30% more accurate than MAFFT and Clustal-Omega.
 .
 Alignment ensembles
 .
 Muscle v5 can generate ensembles of high-accuracy alternative alignments.
 All replicates have equal average accuracy on benchmark test, including
 the MSA made with default parameters. By comparing results of downstream
 analysis (trees, structure prediction...) on different replicates, you can
 assess the effects of alignment errors on your study.
