套件：atac（0~20150903+r2013-8 以及其他的） [debports]
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.
其他與 atac 有關的套件
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- dep: gnuplot
- Command-line driven interactive plotting program.
同時作為一個虛擬套件由這些套件填實： gnuplot-nox, gnuplot-qt, gnuplot-x11
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- dep: leaff
- biological sequence library utilities and applications
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- dep: libc6.1 (>= 2.36)
- GNU C 函式庫：共用函式庫
同時作為一個虛擬套件由這些套件填實： libc6.1-udeb
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- dep: libfile-which-perl
- Perl module for searching paths for executable programs
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- dep: libgcc-s1 (>= 4.2)
- GCC 支援函式庫
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- dep: libstdc++6 (>= 5.2)
- GNU Standard C++ Library v3
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- dep: libunwind8
- library to determine the call-chain of a program - runtime
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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 (<< 3.12)
- dep: python3 (>= 3.11~)
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- dep: python3.11
- Interactive high-level object-oriented language (version 3.11)
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- rec: kmer-examples
- sample data for kmer suite of tools for DNA sequence analysis