パッケージ: libseqlib2 (1.2.0+dfsg-11 など) [debports]
C++ htslib/bwa-mem/fermi interface for interrogating sequence data
C++ API and command line tool that provides a rapid and user-friendly interface to BAM/SAM/CRAM files, global sequence alignment operations and sequence assembly. Four C libraries perform core operations in SeqLib: HTSlib for BAM access, BWA-MEM and BLAT for sequence alignment and Fermi for error correction and sequence assembly. Benchmarking indicates that SeqLib has lower CPU and memory requirements than leading C++ sequence analysis APIs. Minimal SeqLib code can extract, error-correct and assemble reads from a CRAM file and then align with BWA-MEM. SeqLib also provides additional capabilities, including chromosome-aware interval queries and read plotting. Command line tools are available for performing integrated error correction, micro-assemblies and alignment.
その他の libseqlib2 関連パッケージ
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- dep: libc6 (>= 2.40)
- 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
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- dep: libfml0 (>= 0.1+git20190320.b499514)
- library for assembling Illumina short reads in small regions
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- dep: libgcc-s1 (>= 4.2)
- GCC 共有ライブラリ
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- dep: libhts3t64 (>= 1.17)
- C library for high-throughput sequencing data formats
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- dep: libjsoncpp26 (>= 1.9.6)
- library for reading and writing JSON for C++
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- dep: libssw0 (>= 1.1)
- fast SIMD parallelized implementation of the Smith-Waterman algorithm
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- dep: libstdc++6 (>= 13.1)
- GNU 標準 C++ ライブラリ v3
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- dep: zlib1g (>= 1:1.2.3.3)
- 圧縮ライブラリ - ランタイム