套件： hisat2 (2.2.1-3)
hisat2 的相關超連結
Trisquel 的資源：
下載原始碼套件 hisat2：
維護者：
Original Maintainers:
- Debian Med Packaging Team (郵件存檔)
- Michael R. Crusoe
外部的資源：
- 主頁 [daehwankimlab.github.io]
相似套件：
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).
其他與 hisat2 有關的套件
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- dep: libc6 (>= 2.34)
- GNU C Library: Shared libraries
同時作為一個虛擬套件由這些套件提供： libc6-udeb
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- dep: libgcc-s1 (>= 3.3.1) [除 armhf]
- GCC support library
- dep: libgcc-s1 (>= 3.5) [armhf]
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- dep: libstdc++6 (>= 11)
- GNU Standard C++ Library v3
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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)
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- rec: bcftools
- genomic variant calling and manipulation of VCF/BCF files
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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