パッケージ: genomicsdb-tools (1.5.3-3 など) [debports]

[ ソース:  ]

sparse array storage library for genomics (tools)

GenomicsDB is built on top of a htslib fork and an internal array storage system for importing, querying and transforming variant data. Variant data is sparse by nature (sparse relative to the whole genome) and using sparse array data stores is a perfect fit for storing such data.

The GenomicsDB stores variant data in a 2D array where:

 - Each column corresponds to a genomic position (chromosome + position);
 - Each row corresponds to a sample in a VCF (or CallSet in the GA4GH
   terminology);
 - Each cell contains data for a given sample/CallSet at a given position;
   data is stored in the form of cell attributes;
 - Cells are stored in column major order - this makes accessing cells with
   the same column index (i.e. data for a given genomic position over all
   samples) fast.
 - Variant interval/gVCF interval data is stored in a cell at the start of the
   interval. The END is stored as a cell attribute. For variant intervals
   (such as deletions and gVCF REF blocks), an additional cell is stored at
   the END value of the variant interval. When queried for a given genomic
   position, the query library performs an efficient sweep to determine all
   intervals that intersect with the queried position.

This package contains some tools to be run as executable files.

その他の genomicsdb-tools 関連パッケージ

• dep: libc6.1 (>= 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: libc6.1-udeb

• dep: libfmt9 (>= 9.1.0+ds1)

  fast type-safe C++ formatting library -- library

• dep: libgcc-s1 (>= 3.4)

  GCC 共有ライブラリ

• dep: libgenomicsdb1 (= 1.5.3-3+b1)

  sparse array storage library for genomics (shared libraries)

• dep: libgomp1 (>= 4.9)

  GCC OpenMP (GOMP) サポートライブラリ

• dep: libopenmpi3t64 (>= 5.0.5)

  high performance message passing library -- shared library

• dep: libprotobuf23 (>= 3.12.4)

  protocol buffers C++ library

• dep: libstdc++6 (>= 14)

  GNU 標準 C++ ライブラリ v3

• dep: libuuid1 (>= 2.16)

  汎用一意識別子ライブラリ

genomicsdb-tools 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	バージョン	パッケージサイズ	インストールサイズ	ファイル
alpha (非公式の移植版)	1.5.3-3+b1	1,597.4 kB	15,049.0 kB	[ファイル一覧]