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Slide 1
ViMOP: Virus Metagenomics Outbreak Pipeline
Goal: Bring bioinformatics into the labs!
Slide 2
Installation
https://github.com/opr-group-bnitm/vimop
Slide 3
Installation
Copy
https://github.com/opr-group-bnitm/vimop
Slide 4
Installation
Open EPI2ME
Slide 5
Installation
Import workflow
Slide 6
Installation
Paste + Download
Slide 7
Installation
Paste + Download
Slide 8
Set up database
Open workflow
Slide 9
Set up database
Launch workflow
Slide 10
Set up database
Set up databases
Slide 11
Set up database
Select all databases
Slide 12
Set up database
Launch workflow
Slide 13
Set up database
Launch workflow
Slide 14
Set up database
Downloads compressed modular database (~20GB) in small chunks · initializes ViMOP
Slide 15
Set up database
Done! · Go back to launch menu
Slide 16
Start first sample analysis run
Open workflow again
Slide 17
Start first sample analysis run
Launch workflow again
Slide 18
Start first sample analysis run
Select fastq input
Slide 19
Start first sample analysis run
Select fastq input
Slide 20
Start first sample analysis run
Launch workflow
Slide 21
Start first sample analysis run
Launch workflow 🚀
Slide 22
Start first sample analysis run
Monitor process
Slide 23
Start first sample analysis run
Done! · Look at report:
opr.bnitm.de/example_data/report_example_data.html
Slide 24
HTML report: Read statistics
opr.bnitm.de/example_data/report_example_data.html