BRAKER1, BRAKER2, and BRAKER3

BRAKER3

Lars Gabriel, Tomas Bruna, Katharina J. Hoff, Matthis EbAlexandre Lomsadze, Mark Borodovsky, Mario Stanke
RAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA"
Genome Res 2024
PubMed | bioRxiv


BRAKER2

Tomas Bruna, Katharina J. Hoff, Alexandre Lomsadze, Mario Stanke, Mark Borodovsky
"BRAKER2: Automatic Eukaryotic Genome Annotation with GeneMark-EP+ and AUGUSTUS Supported by a Protein Database"
NAR Genomics and Bioinformatics, 2021 Jan; 3(1):lqaa108
PubMed | Article | bioRxiv


BRAKER1

Katharina J. Hoff, Simone Lange, Alexandre Lomsadze, Mark Borodovsky and Mario Stanke
"BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS"
Bioinformatics, 2016 Mar; 32(5):767-9
PubMed | Article


Code of BRAKER 1, 2, and 3 are available for download from GitHub: BRAKER


Correction for BRAKER1 publication:
In computations of the gene prediction accuracy for the D. melanogaster genome, we used the r6.07 version of the fly genome and annotation. However, the Supplementary materials to the paper (available at the "Bioinformatics" journal website) incorrectly cite the earlier r5.55 version of the D. melanogaster genome.

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