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1. Dann Florek

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1. 

   Braker

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   1985 · Crime drama · 1h 14m

   • Overview
   • Cast
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2. Cast

   • 

     Carl Weathers

     Lieutenant Harry Braker
   • 

     Joseph Bottoms

     Eddie Kelso
   • 

     Anne Schedeen

     Lieutenant Polly Peters
   • 

     Alex Rocco

     Orsini
   • 

     Randall "Tex" Cobb

     R.E. Packard
   • 

     Peter Michael Goetz

     Captain Joyce

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3. github.com › Gaius-Augustus › BRAKERGitHub - Gaius-Augustus/BRAKER: BRAKER is a pipeline for ...

   github.com › Gaius-Augustus › BRAKER

   • Cached

   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

4. hpc.nih.gov › apps › brakerbraker:Tool to infer Orthologs from Genome Alignments

   hpc.nih.gov › apps › braker

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   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.

5. www.ncbi.nlm.nih.gov › pmc › articlesWhole-Genome Annotation with BRAKER - PMC

   www.ncbi.nlm.nih.gov › pmc › articles

   BRAKER is a pipeline for highly accurate and fully automated gene prediction in novel eukaryotic genomes. It combines two major tools: GeneMark-ES/ET and AUGUSTUS. GeneMark-ES/ET learns its parameters from a novel genomic sequence in a fully automated fashion; if available, it uses extrinsic evidence for model refinement.

   • Author: Katharina J Hoff, Alexandre Lomsadze, Mark Borodovsky, Mark Borodovsky, Mario Stanke
   • DOI: 10.1007/978-1-4939-9173-0_5

   • Publish Year: 2019
   • Published: 2019

6. People also ask

   How does Braker work?

   • BRAKER mainly features semi-unsupervised, extrinsic evidence data (RNA-Seq and/or protein spliced alignment information) supported training of GeneMark-ES/ET/EP/ETP [F1] and subsequent training of AUGUSTUS with integration of extrinsic evidence in the final gene prediction step.

   GitHub - Gaius-Augustus/BRAKER: BRAKER is a pipeline for fully

   github.com/Gaius-Augustus/BRAKER

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   Can Braker & Augustus be used together?

   • Earlier developed BRAKER1 ( Hoff et al., 2016) and BRAKER2 ( Brůna et al., 2021) combined GeneMark and AUGUSTUS to utilize, respectively, a single source of extrinsic evidence, either RNA-seq short reads or homologous proteins. The use of both extrinsic evidence sources together has a clear potential for more accurate gene structure prediction.

   BRAKER3: Fully automated genome annotation using RNA-seq and pro…

   www.ncbi.nlm.nih.gov/pmc/articles/PMC10312602/

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   Does Braker have a protein mapping pipeline?

   • A protein mapping pipeline for generating hints from proteins of remote homology for BRAKER is not part of BRAKER. Instead, BRAKER runs with the externally generated hints file. Experienced BRAKER users have reported that they generated suitable hints files with their own mapping pipelines.

   Whole-Genome Annotation with BRAKER - PMC - National Center for

   www.ncbi.nlm.nih.gov/pmc/articles/PMC6635606/

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   Who funded Braker?

   • The development of BRAKER1, BRAKER2, and BRAKER3 was supported by the National Institutes of Health (NIH) [GM128145 to M.B. and M.S.]. Development of BRAKER3 was partially funded by Project Data Competency granted to K.J.H. and M.S. by the government of Mecklenburg-Vorpommern, Germany.

   GitHub - Gaius-Augustus/BRAKER: BRAKER is a pipeline for fully

   github.com/Gaius-Augustus/BRAKER

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7. www.ncbi.nlm.nih.gov › pmc › articlesBRAKER3: Fully automated genome annotation using RNA-seq and ...

   www.ncbi.nlm.nih.gov › pmc › articles

   Jun 10, 2023 · BRAKER3 is the latest genome annotation pipeline that continues the BRAKER family. It requires three types of inputs: the genome sequence to annotate, a list of short-read RNA-seq datasets and a protein database file.

   • DOI: 10.1101/2023.06.10.544449

   • Published: 2023 Jun

8. experiments.springernature.com › articles › 10Whole-Genome Annotation with BRAKER - Springer Nature

   experiments.springernature.com › articles › 10

   • Cached

   BRAKER is a pipeline for highly accurate and fully automated gene prediction in novel eukaryotic genomes. It combines two major tools: GeneMark-ES/ET and AUGUSTUS. GeneMark-ES/ET learns its parameters from a novel genomic sequence in a fully automated fashion; if available, it uses extrinsic evidence for model refinement.

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10. bioinformaticsworkbook.org › dataAnalysis › GenomeIntroduction to Braker2 - Bioinformatics Workbook

    bioinformaticsworkbook.org › dataAnalysis › Genome

    • Cached

    Tutorial of how to run Braker2 gene prediction pipeline. I have outlined how to perform a gene annotation of the soybean cyst nematode ( Heterodera glycines) using Braker2.1. Here is the original publication of Braker1 which provides some of the background necessary to understand how Braker2 works. Braker1 pub.

11. bmcbioinformatics.biomedcentral.com › articles › 10TSEBRA: transcript selector for BRAKER - BMC Bioinformatics

    bmcbioinformatics.biomedcentral.com › articles › 10

    • Cached

    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.

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