Paketti: phyml (3:3.3.20220408-4 ja muut)

[ Source: phyml  ]

Phylogenetic estimation using Maximum Likelihood

PhyML is a software that estimates maximum likelihood phylogenies from alignments of nucleotide or amino acid sequences. It provides a wide range of options that were designed to facilitate standard phylogenetic analyses. The main strengths of PhyML lies in the large number of substitution models coupled to various options to search the space of phylogenetic tree topologies, going from very fast and efficient methods to slower but generally more accurate approaches. It also implements two methods to evaluate branch supports in a sound statistical framework (the non-parametric bootstrap and the approximate likelihood ratio test).

PhyML was designed to process moderate to large data sets. In theory, alignments with up to 4,000 sequences 2,000,000 character-long can be analyzed. In practice however, the amount of memory required to process a data set is proportional of the product of the number of sequences by their length. Hence, a large number of sequences can only be processed provided that they are short. Also, PhyML can handle long sequences provided that they are not numerous. With most standard personal computers, the “comfort zone” for PhyML generally lies around 3 to 500 sequences less than 2,000 character long.

This package also includes PhyTime.

Tagit: Biology: Proteins, Field: Biology, field::biology:bioinformatics, implemented-in::c, User Interface: Command Line, Role: role::program, use::analysing, Purpose: Comparing, Works with: Biological Sequence

Muut pakettiin phyml liittyvät paketit

• dep: libc6 (>= 2.34)

  GNU-C-kirjasto: jaetut kirjastot
  myös näennäispaketti, jonka toteuttaa libc6-udeb

• dep: libopenmpi40 (>= 5.0.6)

  high performance message passing library -- shared library

• dep: mpi-default-bin

  Standard MPI runtime programs (metapackage)

Imuroi phyml

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Versio	Paketin koko	Koko asennettuna	Tiedostot
amd64	3:3.3.20220408-4+b1	1,079.9 kt	4,460.0 kt	[tiedostoluettelo]