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.