パッケージ: atac (0~20150903+r2013-8build2)
atac に関するリンク
Trisquel の資源:
kmer ソースパッケージをダウンロード:
- [kmer_0~20150903+r2013-8build2.dsc]
- [kmer_0~20150903+r2013.orig.tar.gz]
- [kmer_0~20150903+r2013-8build2.debian.tar.xz]
メンテナ:
Original Maintainers:
- Debian Med Packaging Team (メールアーカイブ)
- Afif Elghraoui
外部の資源:
- ホームページ [kmer.sourceforge.net]
類似のパッケージ:
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
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- 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 (>= 2.34)
- GNU C Library: Shared libraries
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
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- dep: libfile-which-perl
- Perl module for searching paths for executable programs
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- dep: libgcc-s1 (>= 3.5)
- GCC support library
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- dep: libstdc++6 (>= 5.2)
- GNU Standard C++ Library v3
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- dep: meryl
- in- and out-of-core kmer counting and utilities
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- dep: perl
- Larry Wall's Practical Extraction and Report Language
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- dep: python3
- interactive high-level object-oriented language (default python3 version)
- dep: python3 (<< 3.11)
- dep: python3 (>= 3.10~)
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- dep: python3.10
- Interactive high-level object-oriented language (version 3.10)
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- rec: kmer-examples
- sample data for kmer suite of tools for DNA sequence analysis