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@KatharinaHoff KatharinaHoff released this Sep 6, 2019 · 22 commits to master since this release

Novel features of BRAKER in v2.1.4 (compared to 2.1.2):

  • fully automated generation of track data hubs for display of BRAKER results with the UCSC Genome Browser using MakeHub (https://github.com/Gaius-Augustus/MakeHub)

  • random reduction of training data for AUGUSTUS if training set is bigger than 8000 genes

  • deletion of files that are typically not needed after a BRAKER run has finished successfully

  • improved integration of GeneMark-EX, e.g. new expert options --transmasked_fasta and --min_contig

  • improved integration of GeneMark-EX and AUGUSTUS in ETP mode (RNA-Seq & proteins as evidence)

  • option to replace NCBI BLAST by DIAMOND for speeding up a BRAKER run

  • migration from bam2wig binary (that used to cause compilation issues on many machines) to bamToWig.py

  • fixing of AUGUSTUS genes with spliced (= in frame) stop codons

  • --softwareCheck option if you don't want to run BRAKER but only check whether required software for your run is present

Assets 2

@KatharinaHoff KatharinaHoff released this Sep 10, 2018 · 163 commits to master since this release

This release of BRAKER includes the novel feature of automatic generation of codingseq and protein FASTA-files from AUGUSTUS GTF-predictions in all running modes.

Assets 2
Aug 31, 2018
Tagging the BRAKER versiont hat is used for reference in a manuscript
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