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All materials used in this course will be online and freely available for re-use. We will also continue to provide the links for past materials.
Topics are focused on the analysis of microbial metagenomic data including amplicon, shotgun metagenomics and the skills needed to use these tools, such as the command line and cloud computing. A more detailed overview is below.
We hope these materials can be helpful if you're teaching these topics yourself, or to use them for self-guided learning. If you do find them helpful, please let us know
* [2018 Schedule](https://github.com/edamame-course/2018-Tutorials/wiki/Schedule-EDAMAME-2018) * [Overview of 2017 materials](https://github.com/edamame-course/2017-tutorials/wiki) * [2017 Schedule](https://github.com/edamame-course/2017-tutorials/wiki/Schedule-EDAMAME-2017) [Overview of 2016 materials](https://github.com/edamame-course/2016-tutorials/wiki) [Overview of 2015 materials](https://github.com/edamame-course/2015-tutorials/wiki) [Pages for 2014 tutorials](https://github.com/edamame-course/2014-tutorials/tree/master/_posts)- Computing literacy
- Cloud computing
- Microbial amplicon analysis
- Microbial shotgun metagenome analysis
- Examples of installing mg tools on the EC2
- Demo: using seqtk for subsampling a large metagenome dataset for developing an analysis workflow
- metaG sequencing preprocessing, quality control, and trimming
- Digital normalization
- Assembly with MEGAHit
- Evaluating assembly
- Estimating abundance from metagenomes
- Binning assemblies
- Annotation of assembled reads
- Xander for targeted gene assembly
- Ecological Statistics with R
- Using Databases