套件：hisat2（2.2.1-4 以及其他的）

[ 原始碼： hisat2  ]

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

• dep: libc6 (>= 2.34)

  GNU C 函式庫：共用函式庫
  同時作為一個虛擬套件由這些套件填實： libc6-udeb

• dep: libgcc-s1 (>= 3.0) [除 armel, armhf, i386, mipsel]

  GCC 支援函式庫

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [i386, mipsel]

• dep: libstdc++6 (>= 11)

  GNU Standard C++ Library v3

• dep: perl

  Larry Wall's Practical Extraction and Report Language

• dep: python3

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

• rec: bcftools

  genomic variant calling and manipulation of VCF/BCF files

• rec: python3-hisat2

  Python scripts accompanying hisat2

• rec: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

下載 hisat2

下載可用於所有硬體架構的

硬體架構	版本	套件大小	安裝後大小	檔案
amd64	2.2.1-4+b2	3，572。5 kB	14，154。0 kB	[檔案列表]
arm64	2.2.1-4+b2	3，397。1 kB	13，162。0 kB	[檔案列表]
armel	2.2.1-4+b2	3，366。4 kB	13，248。0 kB	[檔案列表]
armhf	2.2.1-4+b2	3，318。1 kB	11，698。0 kB	[檔案列表]
i386	2.2.1-4+b2	3，489。9 kB	14，726。0 kB	[檔案列表]
mips64el	2.2.1-4+b2	3，470。4 kB	14，428。0 kB	[檔案列表]
mipsel	2.2.1-4+b2	3，648。5 kB	14，840。0 kB	[檔案列表]
ppc64el	2.2.1-4+b2	3，595。6 kB	14，058。0 kB	[檔案列表]
s390x	2.2.1-4+b2	3，193。4 kB	13，676。0 kB	[檔案列表]