Pakket: discosnp (1:2.6.2-3 en anderen)

[ Bron: discosnp  ]

discovering Single Nucleotide Polymorphism from raw set(s) of reads

Software discoSnp is designed for discovering Single Nucleotide Polymorphism (SNP) from raw set(s) of reads obtained with Next Generation Sequencers (NGS).

Note that number of input read sets is not constrained, it can be one, two, or more. Note also that no other data as reference genome or annotations are needed.

The software is composed by two modules. First module, kissnp2, detects SNPs from read sets. A second module, kissreads, enhance the kissnp2 results by computing per read set and for each found SNP:

 1) its mean read coverage
 2) the (phred) quality of reads generating the polymorphism.

This program is superseded by DiscoSnp++.

Andere aan discosnp gerelateerde pakketten

• dep: bc [m68k, sh4]

  GNU bc arbitrary precision calculator language

• dep: gatb-core [niet m68k, sh4]

  Genome Analysis Toolbox with de-Bruijn graph

• dep: libc6 (>= 2.24) [sh4]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6-udeb

  dep: libc6 (>= 2.29) [hppa]

  dep: libc6 (>= 2.34) [niet alpha, arm64, hppa, ia64, m68k, sh4]

  dep: libc6 (>= 2.38) [arm64]

  dep: libc6 (>= 2.4) [m68k]

• dep: libc6.1 (>= 2.34) [alpha]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: 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) [niet amd64, m68k, sh4]

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

  GCC support bibliotheek

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

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC support bibliotheek

• dep: libgcc1 (>= 1:4.2) [sh4]

  Pakket niet beschikbaar

• dep: libgcc2 (>= 4.2.1) [m68k]

  Pakket niet beschikbaar

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

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• dep: libstdc++6 (>= 11) [hppa]

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  dep: libstdc++6 (>= 13.1) [niet arm64, hppa, m68k, sh4]

  dep: libstdc++6 (>= 14) [arm64]

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

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• dep: python [m68k, sh4]

  Pakket niet beschikbaar

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  interactive high-level object-oriented language (default python3 version)

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

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discosnp downloaden

Pakket downloaden voor alle beschikbare platforms

Platform	Versie	Pakketgrootte	Geïnstalleerde grootte	Bestanden
alpha (unofficial port)	1:2.6.2-3+b1	1.407,7 kB	3.063,0 kB	[overzicht]
amd64	1:2.6.2-3+b1	1.421,7 kB	2.904,0 kB	[overzicht]
arm64	1:2.6.2-3+b2	1.408,3 kB	3.060,0 kB	[overzicht]
hppa (unofficial port)	1:2.6.2-1	1.416,6 kB	2.789,0 kB	[overzicht]
ia64 (unofficial port)	1:2.6.2-3+b1	1.435,4 kB	3.315,0 kB	[overzicht]
m68k (unofficial port)	1.2.6-2	121,2 kB	299,0 kB	[overzicht]
mips64el	1:2.6.2-3+b1	1.401,1 kB	3.121,0 kB	[overzicht]
ppc64 (unofficial port)	1:2.6.2-3+b1	1.425,6 kB	3.263,0 kB	[overzicht]
ppc64el	1:2.6.2-3+b1	1.426,6 kB	3.124,0 kB	[overzicht]
riscv64	1:2.6.2-3+b1	1.414,9 kB	2.772,0 kB	[overzicht]
sh4 (unofficial port)	1.2.6-2	148,7 kB	299,0 kB	[overzicht]
sparc64 (unofficial port)	1:2.6.2-3+b1	1.394,9 kB	7.048,0 kB	[overzicht]
x32 (unofficial port)	1:2.6.2-3+b1	1.405,4 kB	2.686,0 kB	[overzicht]