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GALBA code was derived from BRAKER, a fully automated pipeline for predicting genes in the genomes of novel species with RNA-Seq data and a large-scale database of protein sequences (that must not necessarily be closely related to the target species) with GeneMark-ES/ET/EP/ETP and AUGUSTUS.
GALBA, a BRAKER pipeline spin-off for using Miniprot or GenomeThreader to generate training genes, is available at https://github.com/Gaius-Augustus/GALBA.
31 de ago. de 2023 · GALBA was implemented in Perl, building on the existing codebase of BRAKER . Effect of mutation rate from reference to target. GALBA is designed to be used with reference proteomes of (possibly several) closely related species.
10 de abr. de 2023 · We show a direct comparison of GALBA, BRAKER2, and a combination of GALBA with BRAKER2 by TSEBRA (TSEBRA G+B) with the same input data. In addition, we provide GALBA s results with one reference gene set only (labeled with s in Table S1 ).
- 10.1101/2023.04.10.536199
- 2023 Apr
- Version 1. bioRxiv. Preprint. 2023 Apr 10.
28 de mar. de 2024 · BRAKER and Galba are two fully automated and containerized pipelines designed to perform accurate genome annotation. BRAKER integrates the GeneMark-ETP and AUGUSTUS gene finders, employing the TSEBRA combiner to attain high sensitivity and precision.
- arXiv:2403.19416 [q-bio.GN]
- Genomics (q-bio.GN)
GALBA is fully open source and available as a docker image for easy execution with Singularity in high-performance computing environments. Conclusions. Our pipeline addresses the critical need for accurate gene annotation in newly sequenced genomes, and we believe that GALBA will greatly facilitate genome annotation for diverse organisms.
GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from one or several close… Perl 113 3. TSEBRA TSEBRA Public. Forked from LarsGab/TSEBRA. TSEBRA: Transcript Selector for BRAKER. Python 40 6. MakeHub MakeHub Public.
