MetaErg

MetaErg is a comprehensive, fully automated pipeline for annotating metagenomes and metaproteomes. It addresses the challenges of metagenome annotation, such as sequences from diverse organisms across all domains of life, many from understudied lineages with low similarity to reference genes, and potential artifacts from imperfect assembly and binning.

Key features of MetaErg include:

1. Graphical summaries of annotation results for the entire metagenome and individual metagenome-assembled genomes (MAGs).

2. Comprehensive annotation of each gene, including taxonomic classification, enabling functional inferences even for genes with low similarity to reference sequences.

3. Detection of potential assembly or binning artifacts.

4. Visualization of gene and pathway activity using sequencing coverage and proteomic spectral counts when metaproteome information is provided.

5. User-friendly HTML interface with sortable and searchable tables, collapsible trees, and other graphical representations for intuitive navigation of complex data.

Topic

Proteomics;Metagenomics;Sequence sites, features and motifs;Molecular interactions, pathways and networks;Sequence analysis

Detail

  • Operation: Pathway or network prediction;Pathway or network visualisation;Taxonomic classification;Sequence assembly;Genome annotation

  • Software interface: Command-line interface

  • Language: JavaScript,Perl

  • License: Not stated

  • Cost: Free of charge

  • Version name: 1.2.3

  • Credit: Natural Sciences and Engineering Research Council of Canada, Canada Foundation for Innovation, Canada First Research Excellence Fund, Alberta Innovates, Government of Alberta, Genome Canada, University of Calgary, International Microbiome Center.

  • Input: -

  • Output: -

  • Contact: Xiaoli Dong xdong@ucalgary.ca

  • Collection: -

  • Maturity: -

Publications

  • An Integrated Pipeline for Annotation and Visualization of Metagenomic Contigs.
  • Dong X and Strous M. An Integrated Pipeline for Annotation and Visualization of Metagenomic Contigs. An Integrated Pipeline for Annotation and Visualization of Metagenomic Contigs. 2019; 10:999. doi: 10.3389/fgene.2019.00999
  • https://doi.org/10.3389/FGENE.2019.00999
  • PMID: 31681429
  • PMC: PMC6803454

Download and documentation

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