Coffee breaks are planned for approximately 10:00 and 14:30 every day.
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Time
|
Topic
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Teacher
|
Assistant
|
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06-Feb-2023MonUppsala, Umeå, Lund
|
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09:00 - 09:30
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Welcome and general introduction
|
Martin Dahlö
|
|
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09:30 - 10:30
|
Intro to Linux
|
Martin Dahlö
|
|
|
10:30 - 11:45
|
Intro to Linux
|
Martin Dahlö
|
SD,BV,JA,KB,NN
|
|
11:45 - 13:00
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Lunch
|
|
|
|
13:00 - 14:00
|
Intro to Uppmax
|
Martin Dahlö
|
|
|
14:00 - 17:00
|
Intro to Uppmax
|
Martin Dahlö
|
SD,BV,JA,NN,JB
|
|
07-Feb-2023TueUppsala, Umeå, Lund
|
|
09:00 - 09:30
|
File types in Bioinformatics
|
Martin Dahlö
|
|
|
09:30 - 11:00
|
File types in Bioinformatics
|
Martin Dahlö
|
SD,BV,LV,PA,KB,NN
|
|
11:00 - 11:45
|
Better terminal experience
|
Martin Dahlö
|
BV,KL,LV,PA,KB,NN
|
|
11:45 - 13:00
|
Lunch
|
|
|
|
13:00 - 14:00
|
Quality control
|
Markus Mayrhofer
|
BV,KL,LV,PA,KB,NN
|
|
14:00 - 15:00
|
Advanced Bash
|
Martin Dahlö
|
|
|
15:00 - 17:00
|
Advanced Bash
|
Martin Dahlö
|
BV,KL,LV,PA,KB,NN
|
|
08-Feb-2023WedUppsala, Umeå, Lund
|
|
09:00 - 10:15
|
NGS tech & challenges
|
Olga Vinnere Petterson
|
|
|
10:15 - 11:00
|
NGS tech & challenges
|
Olga Vinnere Petterson
|
|
|
11:00 - 11:45
|
NGS Pipelines
|
Franziska Bonath / Maxime Garcia
|
|
|
12:00 - 13:00
|
Lunch
|
|
|
|
13:00 - 14:00
|
Variant-calling workflow
|
Markus Mayrhofer
|
|
|
14:00 - 17:00
|
Variant-calling workflow
|
Markus Mayrhofer
|
AJ,ML,LV,PP,KB,NN
|
|
18:00 - 21:00
|
Course Dinner
|
|
|
|
09-Feb-2023ThuUppsala, Umeå, Lund
|
|
09:00 - 09:30
|
GATK best practices
|
Markus Mayrhofer
|
|
|
09:30 - 11:45
|
Variant-calling workflow
|
Markus Mayrhofer
|
AJ,ML,LV,PP,KB,NN,LK
|
|
11:45 - 13:00
|
Lunch
|
|
|
|
13:00 - 14:00
|
RNA-Seq workflow
|
Dag Ahren / Roy Francis
|
|
|
14:00 - 17:00
|
RNA-Seq workflow
|
Dag Ahren / Roy Francis
|
JH,ML,PA,KB,NN,LK
|
|
10-Feb-2023FriUppsala, Umeå, Lund
|
|
09:00 - 11:45
|
RNA-Seq workflow
|
Dag Ahren / Roy Francis
|
JH,VVH,PA,NN,LK
|
|
11:45 - 13:00
|
Lunch
|
|
|
|
13:00 - 14:00
|
Data management practices
|
Elin Kronander / Stephan Nylinder
|
|
|
14:00 - 14:15
|
NBIS
|
Dag Ahrén / Björn Nystedt
|
|
Date
Venue
Slides
Exercises
AJ: Anna Johansson, BV: Björn Viklund, DA: Dag Ahren, FB: Franziska Bonath, JH: Jason Hill, JB: Joakim Bygdell, JA: Juliana Assis, KL: Katarina Lejonlid, KB: Kristina Benevides, LK: Linda Köhn, LV: Louella Vasquez, MD: Martin Dahlö, MG: Maxime Garcia, ML: Malin Larsson, MM: Markus Mayrhofer, NN: Nina Norgren, OVP: Olga Vinnere Pettersson, PA: Prasoon Agarwal, PP: Paul Pyl, RF: Roy Francis, VVH: Vincent van Hoef, SD: Sebastian DiLorenzo
