Hap10: reconstructing accurate and long polyploid haplotypes using linked reads.

ABSTRACT:

Background

Haplotype information is essential for many genetic and genomic analyses, including genotype-phenotype associations in human, animals and plants. Haplotype assembly is a method for reconstructing haplotypes from DNA sequencing reads. By the advent of new sequencing technologies, new algorithms are needed to ensure long and accurate haplotypes. While a few linked-read haplotype assembly algorithms are available for diploid genomes, to the best of our knowledge, no algorithms have yet been proposed for polyploids specifically exploiting linked reads.

Results

The first haplotyping algorithm designed for linked reads generated from a polyploid genome is presented, built on a typical short-read haplotyping method, SDhaP. Using the input aligned reads and called variant

SUBMITTER: Majidian S 

PROVIDER: S-EPMC7302376 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature