Large-scale genomic initiatives, such as the Earth BioGenome Project, require efficient methods for eukaryotic genome annotation.Here we present an automatic gene finder, GeneMark-ETP, integrating genomic-, transcriptomic-, and protein-derived evidencethat has been developed with a focus on large plant...
GeneMark-ETP, one of the gene finders at the core of BRAKER, is available at https://github.com/gatech-genemark/GeneMark-ETP . AUGUSTUS, the second gene finder at the core of BRAKER, is available at https://github.com/Gaius-Augustus/Augustus . GALBA, a BRAKER pipeline spin-off for usin...
The previously developed annotation pipelinesBRAKER1 and BRAKER2 use RNA-seq or protein data, respectively, but not both. A further significant performance improvementintegrating all three data types was made by the recently released GeneMark-ETP. We here present the BRAKER3 pipeline thatbuilds on ...
The software packagebedtoolsis required by GeneMark-ETP if you want to run BRAKER with both RNA-Seq and protein data. You can download bedtools fromhttps://github.com/arq5x/bedtools2/releases. Here, you can either download a precompiled versionbedtools.static.binary, e.g. wget https://gi...