Balík: bio-rainbow (2.0.4+dfsg-2)

[ Zdroj: bio-rainbow  ]

clustering and assembling short reads for bioinformatics

Efficient tool for clustering and assembling short reads, especially for RAD.

Rainbow is developed to provide an ultra-fast and memory-efficient solution to clustering and assembling short reads produced by RAD-seq. First, Rainbow clusters reads using a spaced seed method. Then, Rainbow implements a heterozygote calling like strategy to divide potential groups into haplotypes in a top-down manner. long a guided tree, it iteratively merges sibling leaves in a bottom-up manner if they are similar enough. Here, the similarity is defined by comparing the 2nd reads of a RAD segment. This approach tries to collapse heterozygote while discriminate repetitive sequences. At last, Rainbow uses a greedy algorithm to locally assemble merged reads into contigs. Rainbow not only outputs the optimal but also suboptimal assembly results. Based on simulation and a real guppy RAD-seq data, it is shown that Rainbow is more competent than the other tools in dealing with RAD-seq data.

Ostatné balíky súvisiace s balíkom bio-rainbow

• dep: libc6 (>= 2.29)

  knižnica GNU C - zdieľané knižnice
  tiež virtuálny balík poskytovaný balíkom libc6-udeb

• dep: perl

  Practical Extraction and Report Language od Larryho Walla

Stiahnuť bio-rainbow

Stiahnuť pre všetky dostupné architektúry

Architektúra	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
amd64	58.8 kB	186.0 kB	[zoznam súborov]
arm64	58.1 kB	178.0 kB	[zoznam súborov]
armel	56.7 kB	179.0 kB	[zoznam súborov]
armhf	56.0 kB	143.0 kB	[zoznam súborov]
i386	63.9 kB	203.0 kB	[zoznam súborov]
mips64el	61.4 kB	209.0 kB	[zoznam súborov]
mipsel	59.9 kB	202.0 kB	[zoznam súborov]
ppc64el	65.6 kB	306.0 kB	[zoznam súborov]
s390x	55.9 kB	194.0 kB	[zoznam súborov]