created by Geraldine_VdAuwera
on 2017-02-19
These are the materials that we are presenting at the February 2017 GATK workshop in Leuven, Belgium.
| Materials | Link | | :----------| :---------- | | DAY 1: GATK Best Practices talks | | | Slide decks presented on Day 1 | Google Drive Folder | | DAY 2: Germline variant discovery | | | Variant Discovery Tutorial Worksheet (Day 2 AM) | PDF on Google Drive | | Variant Filtering Tutorial Worksheet (Day 2 PM) | PDF on Google Drive | | Germline Data Bundle (Day 2) | ZIP on Google Drive | | DAY 3 AM: Somatic mutation discovery | | | MuTect2 Tutorial Worksheet (Day 3 AM) | PDF on Google Drive | | MuTect2 Data Bundle (Day 2) | TAR.GZ on Google Drive | | CNV Tutorial Worksheet (Day 3 AM) | PDF on Google Drive | | CNV Data Bundle (Day 3 AM) | ZIP on GATK website | | DAY 3 PM: Pipelining with WDL | | | WDL Pipelining Tutorial Worksheet (Day 3 PM) | PDF on Google Drive | | WDL Pipelining Data Bundle (Day 2) | ZIP on Google Drive |
Updated on 2017-05-16
From ramiro2k on 2017-03-18
Hello, we teach a bioinformatics class at the University of Vermont, can we use some of your slides?
From Geraldine_VdAuwera on 2017-03-18
@ramiro2k Sure, feel free to use anything you find useful, including the hands-on tutorial materials. We just ask that you provide an attribution notice and make students aware of this website and forum.
From ramiro2k on 2017-03-18
Thank you!!
From zejun on 2017-03-23
Hi,
Where I can find the R/plotting.R script?
Cheers
Zejun
From Sheila on 2017-03-29
@zejun
Hi Zejun,
You can find it in the Germline data bundle above.
-Sheila
From tschaefer on 2017-04-03
Great, thanks for sharing this!
From Hannah66 on 2017-05-15
Hello, we would like to learn WDL at Upenn. Could we use some of your slides? We need your permission to see your slides on google driver.
Many Thanks, Han-Jen Lin
From Geraldine_VdAuwera on 2017-05-15
The access permissions to these files were restricted due to a technical error. Access will be restored shortly; apologies for the inconvenience.
From Geraldine_VdAuwera on 2017-05-16
The files should be restored now; thank you for your patience. Let us know if you run into any more trouble.