RepeatModeler2 for automated genomic discovery of transposable element families.

ABSTRACT: The accelerating pace of genome sequencing throughout the tree of life is driving the need for improved unsupervised annotation of genome components such as transposable elements (TEs). Because the types and sequences of TEs are highly variable across species, automated TE discovery and annotation are challenging and time-consuming tasks. A critical first step is the de novo identification and accurate compilation of sequence models representing all of the unique TE families dispersed in the genome. Here we introduce RepeatModeler2, a pipeline that greatly facilitates this process. This program brings substantial improvements over the original version of RepeatModeler, one of the most widely used tools for TE discovery. In particular, this version incorporates a module for structural disco

SUBMITTER: Flynn JM 

PROVIDER: S-EPMC7196820 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature