PoreCamp Australia 2017

A bootcamp to learn about operating the Oxford Nanopore MinION

Itinerary for PoreCampAU

Day 1: Library Preparation and running the MinION.

  1. 10am Start: Meet/Greet Introduction : Location
  2. How does nanopore sequencing work? - 1D reads vs 2D reads.
  3. How to purify High-Molecular Weight DNA samples.
  4. Prepare samples for nanopore sequencing:
  5. Using MinKNOW.
  6. Platform QC of flowcells.
  7. Preparing the library for the MinION run.
  8. Loading the library onto the flowcell.
  9. Monitoring and assessing your run.

Day 2: Bioinformatics

  1. Handling MinION data file types (WTF: What the Fast5?)
  2. Metagenomics - WIMP (What's in my pot?).
  3. Alignment, best tools to align your MinION data.
  4. De novo assembly - best tools for de novo assembly of long read data.
  5. Scaffolding reads using the MinION, visualise the output.
  6. Best tools for hybrid assembly.
  7. Best tools for long-read analysis.
  8. Local basecalling. What options are out there?

Day 3: Putting it all together

  1. Aligning your sequencing runs.
  2. Understanding the Metrichor output of your runs.
  3. Comparison of Day 1 sequencing runs.
  4. Reflections of nanopore sequencing.
  5. Finish 4pm.