Пакет: minia (3.2.6-4 и другие)

[ Источник: minia  ]

short-read biological sequence assembler

What was referred to as "next-generation" DNA sequencing up to the year 2020 delivered only "short" reads up to ~600 base pairs in length that would then have to be puzzled by random overlaps in their sequence towards a complete genome. This is the genome assembly. And there are many biological pitfalls on long stretches of low complexity regions and copy number variations and other sorts of redundancies that render this difficult.

This package provides a short-read DNA sequence assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day.

The output of Minia is a set of contigs, i.e. stretches of gap-free linear overlaps of short reads. In the best possible case this is a whole chromosome.

Minia produces results of similar contiguity and accuracy to other de Bruijn assemblers (e.g. Velvet).

Другие пакеты, относящиеся к minia

• dep: bc

  калькулятор GNU bc произвольной точности

• dep: libc6 (>= 2.34)

  библиотека GNU C: динамически подключаемые библиотеки
  также виртуальный пакет, предоставляемый libc6-udeb

• dep: libgatbcore3 (>= 1.4.2+dfsg)

  dynamic library of the Genome Analysis Toolbox

• dep: libgcc-s1 (>= 3.0)

  вспомогательная библиотека GCC

• dep: libhdf5-103-1t64

  HDF5 C runtime files - serial version

• dep: libstdc++6 (>= 13.1)

  стандартная библиотека GNU C++ версии 3

• dep: zlib1g

  библиотека сжатия

• rec: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• sug: bandage

  Bioinformatics Application for Navigating De novo Assembly Graphs Easily

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Архитектура	Версия	Размер пакета	В установленном виде	Файлы
ppc64el	3.2.6-4+b1	392,5 Кб	825,0 Кб	[список файлов]