Paket: atac (0~20150903+r2013-6)

[ Quellcode: kmer  ]

genome assembly-to-assembly comparison

atac computes a one-to-one pairwise alignment of large DNA sequences. It first finds the unique k-mers in each sequence, chains them to larger blocks, and fills in spaces between blocks. It was written primarily to transfer annotations between different assemblies of the human genome.

The output is a set of ungapped 'matches', and a set of gapped 'runs' formed from the matches. Each match or run associates one sequence with the other sequence. The association is 'unique', in that there is no other (sizeable) associations for either sequence. Thus, large repeats and duplications are not present in the output - they appear as unmapped regions.

Though the output is always pairwise, atac can cache intermediate results to speed a comparisons of multiple sequences.

This package is part of the Kmer suite.

Andere Pakete mit Bezug zu atac

• dep: gnuplot

  Kommandozeilengesteuertes, interaktives Plot-Programm
  auch ein virtuelles Paket, bereitgestellt durch gnuplot-nox, gnuplot-qt, gnuplot-x11

• dep: leaff

  biological sequence library utilities and applications

• dep: libc6 (>= 2.14) [amd64]

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  auch ein virtuelles Paket, bereitgestellt durch libc6-udeb

  dep: libc6 (>= 2.17) [arm64]

  dep: libc6 (>= 2.7) [armhf, i386]

• dep: libfile-which-perl

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• dep: libgcc1 (>= 1:3.0) [amd64, arm64]

  GCC Support-Bibliothek

  dep: libgcc1 (>= 1:3.5) [armhf]

  dep: libgcc1 (>= 1:4.2) [i386]

• dep: libstdc++6 (>= 5.2)

  GNU-Implementierung der Standard-C++-Bibliothek (Version 3)

• dep: meryl

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• dep: perl

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• dep: python

  Interaktive objektorientierte Hochsprache (Python2-Version)

• dep: python2.7

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• rec: kmer-examples

  sample data for kmer suite of tools for DNA sequence analysis

atac herunterladen

Download für alle verfügbaren Architekturen

Architektur	Paketgröße	Größe (installiert)	Dateien
amd64	379,3 kB	2.763,0 kB	[Liste der Dateien]
arm64	362,8 kB	2.547,0 kB	[Liste der Dateien]
armhf	361,8 kB	2.145,0 kB	[Liste der Dateien]
i386	403,4 kB	3.001,0 kB	[Liste der Dateien]