All the software programs mentioned here are available for download and local installation.
The software of GeneMark line is a part of genome annotation pipelines at NCBI, JGI, Broad Institute as well as the following software packages:
- QUAST : quality assessment tool for genome assemblies
— using GeneMarkS - MetAMOS : a modular and open source metagenomic assembly and analysis
— using MetaGeneMark - MAKER2 : a eukaryotic genome annotation pipeline
— using GeneMark-ES (along with SNAP and AUGUSTUS) - BRAKER1: an RNA-seq based eukaryotic genome annotation pipeline
— using GeneMark-ET and AUGUSTUS - BRAKER2: an Protein based eukaryotic genome annotation pipeline
— using GeneMark-EP+ and AUGUSTUS