Paket: muscle (1:5.1.0-1 och andra)

[ Källkod: muscle  ]

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.

Märken: Biologi: Clustal/ALN, Proteiner, Field: field::biology, field::biology:bioinformatics, Implemented in: implemented-in::c++, interface::commandline, Role: Program, Scope: Utility, Purpose: use::comparing, works-with-format::plaintext, Works with: Behöver ett märke till

Andra paket besläktade med muscle

• dep: libc6 (>= 2.34)

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

• dep: libgcc-s1 (>= 3.0) [ej armel, armhf, riscv64]

  GCC stödbibliotek

  dep: libgcc-s1 (>= 3.4) [riscv64]

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

• dep: libgomp1 (>= 4.9)

  GCC OpenMP (GOMP) support library

• dep: libstdc++6 (>= 11) [ej riscv64]

  GNU standardbibliotek v3 för C++

  dep: libstdc++6 (>= 13.1) [riscv64]

• enh: seaview

  Multiplatform interface for sequence alignment and phylogeny

• enh: t-coffee

  Multiple Sequence Alignment

Hämta muscle

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Version	Paketstorlek	Installerad storlek	Filer
amd64	1:5.1.0-1	290,4 kbyte	843,0 kbyte	[filförteckning]
arm64	1:5.1.0-1	256,3 kbyte	859,0 kbyte	[filförteckning]
armel	1:5.1.0-1	238,0 kbyte	794,0 kbyte	[filförteckning]
armhf	1:5.1.0-1	242,3 kbyte	538,0 kbyte	[filförteckning]
i386	1:5.1.0-1	303,8 kbyte	922,0 kbyte	[filförteckning]
mips64el	1:5.1.0-1	278,3 kbyte	1.104,0 kbyte	[filförteckning]
ppc64el	1:5.1.0-1	309,8 kbyte	1.051,0 kbyte	[filförteckning]
riscv64	1:5.1.0-1+b1	305,9 kbyte	700,0 kbyte	[filförteckning]
s390x	1:5.1.0-1	260,2 kbyte	879,0 kbyte	[filförteckning]