A technical guide to TRITEX, a computational pipeline for chromosome-scale sequence assembly of plant genomes.

ABSTRACT:

Background

As complete and accurate genome sequences are becoming easier to obtain, more researchers wish to get one or more of them to support their research endeavors. Reliable and well-documented sequence assembly workflows find use in reference or pangenome projects.

Results

We describe modifications to the TRITEX genome assembly workflow motivated by the rise of fast and easy long-read contig assembly of inbred plant genomes and the routine deployment of the toolchains in pangenome projects. New features include the use as surrogates of or complements to dense genetic maps and the introduction of user-editable tables to make the curation of contig placements easier and more intuitive.

Conclusion

Even maximally contiguous sequence assemblies of the telomere-to-tel

SUBMITTER: Marone MP 

PROVIDER: S-EPMC9719158 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature