2016 / October / Metagenomics¶
This workshop was given on October 12th and 13th, 2016, by Harriet Alexander and C. Titus Brown, at the Scripps Institute of Oceanography.
For more information, please contact Titus directly.
The workshop was recorded (although the recording isn’t always very good, sorry!) You can view it here:
Tutorials:
- Welcome!
- Starting up an Amazon Web Services machine
- Indices and tables
- Short read quality and trimming
- K-mer Spectral Error Trimming
- Run the MEGAHIT assembler
- Annotation with Prokka
- Day 2 - installation instructions
- Gene Abundance Estimation with Salmon
- Mapping
- Slicing and dicing with k-mers
- Using and Installing Circos
- Workflow and repeatability discussion
Technical information¶
The github repository for this workshop is public at https://github.com/ngs-docs/2016-metagenomics-sio
LICENSE: This documentation and all textual/graphic site content is licensed under the Creative Commons - 0 License (CC0) -- fork @ github. Presentations (PPT/PDF) and PDFs are the property of their respective owners and are under the terms indicated within the presentation.