HalSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments.

ABSTRACT:

Background

Large-scale sequencing projects provide high-quality full-genome data that can be used for reconstruction of chromosomal exchanges and rearrangements that disrupt conserved syntenic blocks. The highest resolution of cross-species homology can be obtained on the basis of whole-genome, reference-free alignments. Very large multiple alignments of full-genome sequence stored in a binary format demand an accurate and efficient computational approach for synteny block production.

Findings

halSynteny performs efficient processing of pairwise alignment blocks for any pair of genomes in the alignment. The tool is part of the HAL comparative genomics suite and is targeted to build synteny blocks for multi-hundred-way, reference-free vertebrate alignments built with the Cact

SUBMITTER: Krasheninnikova K 

PROVIDER: S-EPMC7254927 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature