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EMGB

Exploratory Metagenome Browser (EMGB)

The output generated by the Metagenomics-Toolkit can be imported into EMGB. EMGB allows you to easily explore your metagenomic samples in terms of MAGs, genes and their function.

Your configuration must include at least the following analysis steps:

  • Assembly

  • Binning

  • Gene prediction and annotation with Prokka

  • Gene annotation with MMseqs

  • Gene taxonomy prediction with MMseqs

We offer a script bin/emgb.sh that allows you to export a metagenomics toolkit output folder to emgb compatible json files.

Example Call:

bash emgb.sh --output=output/test1 --runid=1 --binsdir=output/test1/1/binning/0.5.0/metabat --blastdb=bacmet20_predicted --name=test1

You can get a help page for the necessary arguments by running emgb.sh --help.