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IMPACTT workshop tutorials 2022
Robyn Wright edited this page May 19, 2023
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We ran two different IMPACTT bioinformatics workshops in 2022, one in Calgary in May/June and a second in Montréal in December. You can find links to both of them below - the May/June one was adapted for anyone not in the workshop to be able to also use, while the December one is available at the link but hasn't been adapted for use on other computers.
- Metagenomic taxonomic annotation (Calgary, May/June 2022)
- Metagenomic functional annotation (Calgary, May/June 2022; assumes you have already worked through the taxonomic annotation tutorial above)
- Metagenomic taxonomic annotation and MAG assembly and binning (Montréal, December 2022)
- Please feel free to post a question on the Microbiome Helper google group if you have any issues.
- General comments or inquires about Microbiome Helper can be sent to [email protected].
Useful Links
Microbiome Helper 2
- Overview
- Tutorial data
- QIIME2 marker gene workflow
- QIIME2 basic statistics and visualisation
- Statistical analysis workflow in R
- Metagenomics first steps
- Taxonomic annotation with Kraken 2
- Getting a tree for metagenomic reads
- MAG assembly, binning, and curation with Anvi'o
Main SOPs
Amplicon SOP v2 (qiime2-amplicon-2024.5)
PacBio Amplicon SOP v2 (qiime2-2022.2)
Tutorials