Ploidyfrost: Reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graphs.

ABSTRACT: Polyploidy is ubiquitous and its consequences are complex and variable. A change of ploidy level generally influences genetic diversity and results in morphological, physiological and ecological differences between cells or organisms with different ploidy levels. To avoid cumbersome experiments and take advantage of the less biased information provided by the vast amounts of genome sequencing data, computational tools for ploidy estimation are urgently needed. Until now, although a few such tools have been developed, many aspects of this estimation, such as the requirement of a reference genome, the lack of informative results and objective inferences, and the influence of false positives from errors and repeats, need further improvement. We have developed ploidyfrost, a de Bruijn graph-ba

SUBMITTER: Sun M 

PROVIDER: S-EPMC10092044 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature