Chromosomer: a reference-based genome arrangement tool for producing draft chromosome sequences.

ABSTRACT:

Background

As the number of sequenced genomes rapidly increases, chromosome assembly is becoming an even more crucial step of any genome study. Since de novo chromosome assemblies are confounded by repeat-mediated artifacts, reference-assisted assemblies that use comparative inference have become widely used, prompting the development of several reference-assisted assembly programs for prokaryotic and eukaryotic genomes.

Findings

We developed Chromosomer - a reference-based genome arrangement tool, which rapidly builds chromosomes from genome contigs or scaffolds using their alignments to a reference genome of a closely related species. Chromosomer does not require mate-pair libraries and it offers a number of auxiliary tools that implement common operations accompanying the

SUBMITTER: Tamazian G 

PROVIDER: S-EPMC4994284 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature