Package: hisat2 (2.2.1-5) [debports]

[ Source:  ]

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).

Other Packages Related to hisat2

• dep: libc6 (>= 2.38)

  GNU C 라이브러리: 공유 라이브러리
  also a virtual package provided by libc6-udeb

• dep: libgcc-s1 (>= 3.0)

  GCC 기능 지원 라이브러리

• dep: libstdc++6 (>= 13.1)

  GNU 표준 C++ 라이브러리 v3

• dep: perl

  래리 월의 Practical Extraction and Report Language

• dep: python3

  interactive high-level object-oriented language (default python3 version)

• rec: bcftools

  VCF/BCF 파일들의 게놈 변형 호출 및 조작

• rec: python3-hisat2

  Python scripts accompanying hisat2

• rec: samtools

  SAM, BAM, CRAM 형식에서 시퀀스 정렬 처리

Download hisat2

Download for all available architectures

Architecture	Package Size	Installed Size	Files
ppc64 (unofficial port)	3,507.0 kB	14,186.0 kB	[list of files]