Lieutenant Harry Braker
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It enables the usage of RNA-seq and protein data in a fully automated pipeline to train and predict highly reliable genes with GeneMark-ETP and AUGUSTUS. The result of the pipeline is the combined gene set of both gene prediction tools, which only contains genes with very high support from extrinsic evidence.
In contrast to other genome annotation pipelines, such as e.g. MAKER [ 11, 12 ], BRAKER trains both gene finders in a fully automated fashion before applying them to the genome. For gene prediction, both GeneMark-ES/ET and AUGUSTUS use statistical models with a large number of parameters.
- Katharina J Hoff, Alexandre Lomsadze, Mark Borodovsky, Mark Borodovsky, Mario Stanke
- 10.1007/978-1-4939-9173-0_5
- 2019
- 2019
BRAKER3 enables the usage of RNA-seq and protein data in a fully automated pipeline to train and predict highly reliable genes with GeneMark-ETP and AUGUSTUS. The result of the pipeline is the combined gene set of both gene prediction tools, which only contains genes with very high support from extrinsic evidence.
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Feb 29, 2024 · Gene prediction has remained an active area of bioinformatics research for a long time. Still, gene prediction in large eukaryotic genomes presents a challenge that must be addressed by new algorithms. The amount and significance of the evidence available from transcriptomes and proteomes vary acros ….
Nov 25, 2021 · TSEBRA is a tool that selects the best gene models from BRAKER1 and BRAKER2, two pipelines for annotating protein-coding genes in eukaryotic genomes. BRAKER1 uses RNA-seq data and BRAKER2 uses homologous protein data as extrinsic evidence.
- Lars Gabriel, Katharina J Hoff, Tomáš Brůna, Mark Borodovsky, Mario Stanke
- 2021
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes - Gaius-Augustus/BRAKER
braker is a tool that uses RNA-seq and protein data to train and predict protein coding genes with GeneMark-ETP and AUGUSTUS. It is part of the BRAKER suite of tools for novel eukaryotic genomes.
