パッケージ: hisat2 (2.2.1-5)
hisat2 に関するリンク
Debian の資源:
hisat2 ソースパッケージをダウンロード:
メンテナ:
外部の資源:
- ホームページ [daehwankimlab.github.io]
類似のパッケージ:
graph-based alignment of short nucleotide reads to many genomes
HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as against a single reference genome). Based on an extension of BWT for graphs a graph FM index (GFM) was designed and implementd. In addition to using one global GFM index that represents a population of human genomes, HISAT2 uses a large set of small GFM indexes that collectively cover the whole genome (each index representing a genomic region of 56 Kbp, with 55,000 indexes needed to cover the human population). These small indexes (called local indexes), combined with several alignment strategies, enable rapid and accurate alignment of sequencing reads. This new indexing scheme is called a Hierarchical Graph FM index (HGFM).
その他の hisat2 関連パッケージ
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- 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
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- dep: libgcc-s1 (>= 3.5)
- GCC 共有ライブラリ
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- dep: libstdc++6 (>= 13.1)
- GNU 標準 C++ ライブラリ v3
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- dep: perl
- Larry Wall 作の実用的な抽出とレポート用の言語
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- dep: python3
- interactive high-level object-oriented language (default python3 version)
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- rec: bcftools
- ゲノムの variant call と VCF/BCF ファイルの操作
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- rec: python3-hisat2
- Python scripts accompanying hisat2
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- rec: samtools
- processing sequence alignments in SAM, BAM and CRAM formats