Metagenemark: Analysis of NGS Sequences with Clc Genomic Workbench

Gene prediction and annotation plays central role in genomics. However, in spite of much attention, open problems still exist and stimulate development of new algorithmic solutions in all categories of gene finding. Particularly, gene prediction in short assemblies of NGS reads e.g. in short metagenomic sequences, is far from trivial.

The gene finder, MetaGeneMark, has been frequently used in individual labs for analysis of short sequences. It has also been used as a part of comprehensive pipelines, such as DOE JGI IMG/M pipeline for annotation of environmental metagenomes.

Implementation of MetaGeneMark in the CLC Genomic Workbench, its applications and the theory behind MetaGeneMark is the subject of this presentation.