Paket: minia (3.2.6-4 och andra)

[ Källkod: 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).

Andra paket besläktade med minia

• dep: bc

  GNU bc arbitrary precision calculator language

• dep: libc6 (>= 2.24) [sh4]

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

  dep: libc6 (>= 2.34) [ej alpha, ia64, m68k, sh4]

  dep: libc6 (>= 2.4) [m68k]

• dep: libc6.1 (>= 2.34) [alpha]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6.1-udeb

  dep: libc6.1 (>= 2.37) [ia64]

• dep: libgatbcore3 (>= 1.4.2) [amd64]

  dynamic library of the Genome Analysis Toolbox

  dep: libgatbcore3 (>= 1.4.2+dfsg) [ej amd64, m68k, sh4]

• dep: libgcc-s1 (>= 3.0) [ej hppa, ia64, m68k, sh4]

  GCC stödbibliotek

  dep: libgcc-s1 (>= 4.2) [ia64]

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC stödbibliotek

• dep: libgcc1 (>= 1:4.2) [sh4]

  Paketet inte tillgängligt

• dep: libgcc2 (>= 4.2.1) [m68k]

  Paketet inte tillgängligt

• dep: libhdf5-103-1 [hppa]

  HDF5 C runtime files - serial version

• dep: libhdf5-103-1t64 [ej hppa, m68k, sh4]

  HDF5 C runtime files - serial version

• dep: libstdc++6 (>= 11) [hppa]

  GNU standardbibliotek v3 för C++

  dep: libstdc++6 (>= 13.1) [ej hppa, m68k, sh4]

  dep: libstdc++6 (>= 5.2) [m68k, sh4]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• dep: zlib1g [ej m68k, sh4]

  Kompressionsbibliotek - körtidspaket

  dep: zlib1g (>= 1:1.2.3.4) [m68k, sh4]

• rec: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• sug: bandage

  Bioinformatics Application for Navigating De novo Assembly Graphs Easily

Hämta minia

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Version	Paketstorlek	Installerad storlek	Filer
alpha (inofficiell anpassning)	3.2.6-4+b1	389,1 kbyte	827,0 kbyte	[filförteckning]
amd64	3.2.6-4+b1	391,1 kbyte	745,0 kbyte	[filförteckning]
arm64	3.2.6-4+b2	386,2 kbyte	825,0 kbyte	[filförteckning]
hppa (inofficiell anpassning)	3.2.6-2	400,6 kbyte	744,0 kbyte	[filförteckning]
ia64 (inofficiell anpassning)	3.2.6-4+b1	400,4 kbyte	941,0 kbyte	[filförteckning]
m68k (inofficiell anpassning)	1.6906-2	173,6 kbyte	298,0 kbyte	[filförteckning]
mips64el	3.2.6-4+b1	382,4 kbyte	844,0 kbyte	[filförteckning]
ppc64 (inofficiell anpassning)	3.2.6-4+b1	391,9 kbyte	889,0 kbyte	[filförteckning]
ppc64el	3.2.6-4+b1	392,5 kbyte	825,0 kbyte	[filförteckning]
riscv64	3.2.6-4+b1	388,9 kbyte	689,0 kbyte	[filförteckning]
sh4 (inofficiell anpassning)	1.6906-2	192,8 kbyte	291,0 kbyte	[filförteckning]
sparc64 (inofficiell anpassning)	3.2.6-4+b1	379,3 kbyte	2.431,0 kbyte	[filförteckning]
x32 (inofficiell anpassning)	3.2.6-4+b1	391,2 kbyte	707,0 kbyte	[filförteckning]