パッケージ: atac (0~20150903+r2013-9)

[ ソース: 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.

その他の atac 関連パッケージ

• dep: gnuplot

  Command-line driven interactive plotting program.
  以下のパッケージによって提供される仮想パッケージでもあります: gnuplot-nox, gnuplot-qt, gnuplot-x11

• dep: leaff

  biological sequence library utilities and applications

• dep: libc6 (>= 2.38)

  GNU C ライブラリ: 共有ライブラリ
  以下のパッケージによって提供される仮想パッケージでもあります: libc6-udeb

• dep: libfile-which-perl

  Perl module for searching paths for executable programs

• dep: libgcc-s1 (>= 3.0)

  GCC 共有ライブラリ

• dep: libstdc++6 (>= 5.2)

  GNU 標準 C++ ライブラリ v3

• dep: meryl

  in- and out-of-core kmer counting and utilities

• dep: perl

  Larry Wall 作の実用的な抽出とレポート用の言語

• dep: python3

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

  dep: python3 (<< 3.13)

  dep: python3 (>= 3.12~)

• dep: python3.12

  Interactive high-level object-oriented language (version 3.12)

• rec: kmer-examples

  sample data for kmer suite of tools for DNA sequence analysis

atac のダウンロード

すべての利用可能アーキテクチャ向けのダウンロード

アーキテクチャ	パッケージサイズ	インストールサイズ	ファイル
arm64	357.5 kB	3,360.0 kB	[ファイル一覧]