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Nanopore Learning / Courses /
Metagenomics

This course brings together new and existing content to help you plan and perform metagenomics experiments using nanopore sequencing and analysis solutions.

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Course overview

Metagenomics Planning

1 Introduction to metagenomics
2 Library preparation: Extraction methods and sample handling
3 Library preparation: Quality control of input DNA or RNA
4 Library preparation: Improving sequencing yields

Metagenomics Preparation

5 Library Preparation: An introduction and overview of the options available
6 Library Preparation: Comparing PCR-free kits
7 Library preparation: Low input PCR kits
8 Library preparation: 16S barcoding kits
9 Library preparation: Barcoding kits and workflows

Metagenomics Sequencing

10 A practical demonstration of priming and loading a flow cell
11 A practical demonstration of priming and loading a Flongle flow cell
12 MinKNOW: The graphical user interface (GUI)
13 MinKNOW: Setting up a new experiment
14 MinKNOW: Assessing your run

Metagenomics Analysis

15 Introduction to metagenomics classification concepts
16 Introduction to metagenomic classification solutions
17 Technical demonstration of metagenomic classification through EPI2ME
18 Introduction to metagenomic assembly
19 Quality control of metagenomic assemblies
20 Additional concepts in metagenomic assembly

Additional concepts in metagenomic assembly

10 min
Learning objectives
  • How to estimate required coverage depth for metagenomic assembly
  • Pre-and post-assembly binning
  • Dereplication of assemblies
  • Example tools that can be used
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