Paketti: hisat2 (2.2.1-5)

Links for hisat2

Debian-palvelut:

Imuroi lähdekoodipaketti hisat2:

Ylläpitäjät:

External Resources:

Kotisivu [daehwankimlab.github.io]

Samankaltaisia paketteja:

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).

Muut pakettiin hisat2 liittyvät paketit

depends

recommends

suggests

enhances

dep: libc6 (>= 2.38)

GNU-C-kirjasto: jaetut kirjastot
myös näennäispaketti, jonka toteuttaa libc6-udeb
dep: libgcc-s1 (>= 3.5)

GCC:n apukirjasto
dep: libstdc++6 (>= 13.1)

GNU standardi C++ -kirjasto, versio 3
dep: perl

Larry Wallin kieli tekstitiedostojen analysointia ja raportointia varten
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

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