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SIMBA partners are happy to announce that the third SIMBA training course will take place online over four days from 2nd-5th February 2021. This hands-on workshop is perfect for anyone who is interested in learning how to analyse shotgun metagenomics data.
Course overview
Using real-world examples from the SIMBA project this hands-on metagenomics workshop will focus on analysing shotgun metagenomics sequencing data. Additionally, there will be an introduction to the metagenomics pipeline being developed by SIMBA project partner UNIBI.
Anyone interested in learning how to analyse shotgun metagenomics data should take this course.
Agenda
Day 0 – Unix Introduction (optional)
| Start | End | Topic |
| 9:00 | 9:10 | Login / Welcome |
| 9:10 | 12:00 | Introduction to basic Unix commands |
Day 1 – Introduction & Preparation
| Start | End | Topic |
| 8:45 | 9:00 | Login |
| 9:00 | 9:10 | Welcome |
| 9:10 | 10:30 | Introduction to de.NBI cloud |
| 10:30 | 11:00 | Break |
| 11:00 | 11.30 | Introduction to metagenomics & sequencing technologies |
| 11.30 | 12:30 | Data pre-processing, quality control & introduction to dataset |
Day 2 – Working in the cloud
| Start | End | Topic |
| 9:00 | 10:10 | Assembly |
| 10:10 | 10:25 | Break |
| 10:25 | 11:35 | Binning |
| 11:35 | 12:25 | Annotation |
Day 3 – Statistical Analysis
| Start | End | Topic |
| 9:00 | 9:30 | Introduction to R |
| 9:30 | 10:20 | Diversity Analysis |
| 10:20 | 10:35 | Break |
| 10:35 | 11:25 | Differential abundance analysis |
| 11:25 | 12:15 | Correlation Analysis |
| 12:15 | 13:00 | Break |
| 13:00 | 14:00 | Introduction to EMGB |
| 14:00 | 14:30 | Wrap up |
Practical Information
Location: Online training course, full details on how to access the course will be provided after acceptance to the course.
Format: The training course will take place over three days with an optional introductory session. It will involve lectures, discussions and hands-on practical sessions. Course material will be distributed to all accepted participants prior to course commencement. Course tutors can be approached by email with any question regarding the course or provided material.
Date and Time: (2nd -5th February 2021)
Day 0: Optional Introductory Session (9:00-12:00 CET)
Day 1: Introduction & Preparation (8:45-12:30 CET)
Day 2: Working in the cloud (9:00-12:25 CET)
Day 3: Statistical Analysis (9:00-14:30 CET)
Fees: Course registration and participation is free, thanks to the European Union Horizon 2020 funding.