Module: Meta-omics

This lecture briefly introduces 16S sequencing, a popular technique used for taxonomic profiling of microbial communities.

• Slides: Version in Video | Latest Version

• Slack: #metagenomics_introduction
  • Slack Invite
• Gitter
• Galaxy Help Forum

This lecture briefly introduces 16S sequencing, a popular technique used for taxonomic profiling of microbial communities.

• Tutorial: Version in Video | Latest Version
  FAQs

• Slack: #metagenomics_mothur-miseq-sop-short
  • Slack Invite
• Gitter
• Galaxy Help Forum

• Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy
• Using a mock community to assess the error rate of your sequencing experiment
• Visualize sample diversity using Krona and Phinch

This video will show you the full process of sequencing a bacterial genome using the Oxford Nanopore MinION sequencer.

• Slack: #wetlab_miseq
  • Slack Invite
• Gitter
• Galaxy Help Forum

Nanopore Sequencing has many applications in a clinical setting. In this lecture, Astrid Heikema discusses how her group at the Erasmus Medical Center uses Nanopore for sequencing of bacterial Genomes.

• Slack: #metagenomics_clinical-applications
  • Slack Invite
• Gitter
• Galaxy Help Forum

This tutorial will guide you through the process of assembling your Nanopore-sequenced bacterial samples and determining the presence of antibiotic resistance genes.

• Tutorial: Version in Video | Latest Version
  FAQs
• Related Tutorial: Version in Video | Latest Version

• Slack: #metagenomics_plasmid-metagenomics-nanopore
  • Slack Invite
• Gitter
• Galaxy Help Forum

• Perform Quality control on your reads
• Assemble a genome with Minimap2/Miniasm/Racon
• Determine the structure of the genome(s)
• Scan for antimicrobial resistance genes with Staramr