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Morgan Langille edited this page Aug 5, 2016
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Microbiome Helper is a repository that contains several resources to help researchers working with microbial sequencing data:
- A series of scripts that help process and automate various microbiome and metagenomic bioinformatic tools.
- Workflows for analyzing 16S/18S rRNA and metagenomic data.
- Tutorials with test data, example output, and questions for different microbiome analyses.
- A Virtual Box image that can be used to run our workflows and tutorials with little or no configuration.
These scripts were produced by the Integrated Microbiome Resource. It is important that you cite the tools that are wrapped by our scripts.
Note that the scripts and workflows are continually being updated.
You can use the sidebar menu to navigate the wiki.
- 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 morgan.langille@dal.ca.
Useful Links
Main SOPs
Amplicon SOP v2 (virtual box workflow)
Amplicon SOP v2 (qiime2-2022.11)
Amplicon SOP v2 (qiime2-2024.5)
PacBio Amplicon SOP v2 (qiime2-2022.2)
Tutorials
- CBW 2024 Workshops
- CBW-IMPACTT-workshop-tutorials-2023
- Intro to Unix
- ICG workshop tutorials 2023
- IMPACTT workshop tutorials 2022
- PICRUSt2 (CBW 2021)
- Metagenomics (CBW 2021)
- Intro to GNU Parallel
- BIOC4010 16S Tutorial
- Metagenomics Tutorial (Humann2 based)
- Download From SRA
- Random Forest Tutorial in R
- Other Tutorials