Schedule

Monday, 27 May 2024

Time Topic Teacher
09.00 - 09.20 Welcome and introduction VK

09.20 - 10.20

Lectures:

  • Anatomy of a Snakefile
  • Scatter-gather solutions (one file to many files, many files to one file)
  • Example workflow
 JS, VK
10.20 - 12.50

Breakout rooms (incl. coffee break):

  • Ice-breaker session
  • Feedback session: 30 minutes per participant
  • Coding session
 JS, MM, PU, VK
12.50 - 13.00 Wrap-up day 1 VK

 

Tuesday, 28 May 2024

Time Topic Teacher

09.00 - 10.00

Lectures:

  • Using conda, containers and env-modules in Snakemake
  • Running Snakemake locally & on a cluster
 MM, PU
10.00 - 12.50

Breakout rooms (incl. coffee break):

  • Coding session
 JS, MM, PU, VK
12.50 - 13.00 Wrap-up day 2 VK

 

Wednesday, 29 May 2024

Time Topic Teacher

09.00 - 10.00

Lectures:

  • Best practices for Snakemake workflows
 PU
09.30 - 12.50

Breakout rooms (incl. coffee break):

  • Coding session
 JS, MM, PU, VK
12.50 - 13.00 Final wrap-up VK

 

VK Verena Kutschera

JS John Sundh

MM Marcel Martin

PU Per Unneberg