Module Genome Analysis
The OmicsBox Genome Analysis module allows to characterize and analyze newly sequenced genomes, from raw reads to gene structures in an efficient and user-friendly way.
- Quality Control and Assessment: Use FastQC and Trimmomatic to perform the quality control of your samples, to filter reads and to remove low-quality bases.
- De novo Assembly: The assembly feature based on ABySS allows reconstructing whole genome sequences without a reference genome or specific hardware requirements.
- Repeat Masking: Mask repeats and low complexity DNA sequences of your eukaryotic genome assemblies with RepeatMasker to improve downstream gene predictions.
- Gene Finding: Perform prokaryotic (Glimmer) and eukaryotic (Augustus) gene predictions to characterize genome structure. The eukaryotic gene prediction offers RNA-seq intron hint support.
Figure 1: Genome Analysis menu
Genome Analysis use case: https://www.biobam.com/genome-assembly-annotation-sarocladium-oryzae/.
Genome Analysis Example Dataset: Download.