Package: bio-rainbow (2.0.4+dfsg-1)
Links for bio-rainbow
Trisquel Resources:
Download Source Package bio-rainbow:
- [bio-rainbow_2.0.4+dfsg-1.dsc]
- [bio-rainbow_2.0.4+dfsg.orig.tar.xz]
- [bio-rainbow_2.0.4+dfsg-1.debian.tar.xz]
Maintainer:
Original Maintainers:
- Debian Med Packaging Team (Mail Archive)
- Olivier Sallou
External Resources:
- Homepage [sourceforge.net]
Similar packages:
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.
Other Packages Related to bio-rainbow
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- dep: libc6 (>= 2.14) [amd64]
- GNU C Library: Shared libraries
also a virtual package provided by libc6-udeb
- dep: libc6 (>= 2.4) [armhf]
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- dep: perl
- Larry Wall's Practical Extraction and Report Language
Download bio-rainbow
Architecture | Package Size | Installed Size | Files |
---|---|---|---|
amd64 | 50.7 kB | 161 kB | [list of files] |
armhf | 47.4 kB | 128 kB | [list of files] |