Rainbow is a tool to cluster and assemble short reads sequences originating from restriction-site associated DNA sequencing (RAD-seq). The Rainbow algorithm discriminates repeats from heterozygous sequences by grouping the reads into haplotypes and creates a guide tree, and implements a greedy algorithm for contig assembly.
Sequence assembly
Chong Z, Ruan J, Wu CI "Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads." Bioinformatics. 2012 Nov 1;28(21):2732-7. Epub 2012 Sep 1. https://doi.org/10.1093/bioinformatics/bts482
PMID: 22942077
Chen D, Eulenstein O, Fernández-Baca D "Rainbow: a toolbox for phylogenetic supertree construction and analysis." Bioinformatics https://doi.org/10.1093/bioinformatics/bth313
PMID: 15145807
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