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[ Source: wise  ]

Пакунок: wise (2.4.1-21)

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comparison of biopolymers, like DNA and protein sequences

Wise2 is a package focused on comparisons of biopolymers, commonly DNA and protein sequences. There are many other packages which do this, probably the best known being BLAST package (from NCBI) and the Fasta package (from Bill Pearson). There are other packages, such as the HMMER package (Sean Eddy) or SAM package (UC Santa Cruz) focused on hidden Markov models (HMMs) of biopolymers.

Wise2's particular forte is the comparison of DNA sequence at the level of its protein translation. This comparison allows the simultaneous prediction of say gene structure with homology based alignment.

Wise2 also contains other algorithms, such as the venerable Smith-Waterman algorithm, or more modern ones such as Stephen Altschul's generalised gap penalties, or even experimental ones developed in house, such as dba. The development of these algorithms is due to the ease of developing such algorithms in the environment used by Wise2.

Wise2 has also been written with an eye for reuse and maintainability. Although it is a pure C package you can access its functionality directly in Perl. Parts of the package (or the entire package) can be used by other C or C++ programs without namespace clashes as all externally linked variables have the unique identifier Wise2 prepended.

Tags: Field: Biology, Bioinformatics, Implemented in: implemented-in::c, interface::commandline, Role: Program, Scope: Utility, Purpose: use::comparing, works-with::TODO

Інші пакунки пов'язані з wise

  • depends
  • recommends
  • suggests
  • enhances

Завантажити wise

Завантаження для всіх доступних архітектур
Архітектура Розмір пакунка Розмір після встановлення Файли
alpha (unofficial port) 1,083.0 kB11,995.0 kB [список файлів]
amd64 955.3 kB9,665.0 kB [список файлів]
arm64 939.2 kB9,275.0 kB [список файлів]
armel 726.4 kB8,452.0 kB [список файлів]
armhf 765.4 kB6,020.0 kB [список файлів]
hppa (unofficial port) 936.7 kB9,792.0 kB [список файлів]
i386 1,053.4 kB10,833.0 kB [список файлів]
m68k (unofficial port) 915.4 kB8,565.0 kB [список файлів]
mips64el 1,065.1 kB11,982.0 kB [список файлів]
mipsel 1,053.5 kB11,341.0 kB [список файлів]
powerpcspe (unofficial port) 759.8 kB10,241.0 kB [список файлів]
ppc64 (unofficial port) 1,060.7 kB14,093.0 kB [список файлів]
ppc64el 1,083.9 kB13,133.0 kB [список файлів]
riscv64 (unofficial port) 848.1 kB6,710.0 kB [список файлів]
s390x 921.5 kB11,139.0 kB [список файлів]
sh4 (unofficial port) 861.9 kB7,545.0 kB [список файлів]
sparc64 (unofficial port) 771.0 kB8,817.0 kB [список файлів]
x32 (unofficial port) 951.5 kB9,429.0 kB [список файлів]