| 1 |
08:00-08:30 |
0:30 |
0 |
Registration and Breakfast |
| |
08:30-09:00 |
0:30 |
|
Welcome and Introductions |
| |
09:00-10:00 |
1:00 |
|
Lecture/Lab: Introduction to Cloud Computing |
| |
10:00-10:30 |
0:30 |
|
Break |
| |
10:30-12:00 |
1:30 |
1 |
Lecture: Introduction to RNA sequencing |
| |
12:00-13:00 |
1:00 |
|
Lunch |
| |
13:00-15:00 |
2:00 |
|
Inputs - References, Annotations, Indexing and Data |
| |
15:00-15:30 |
0:30 |
|
Break |
| |
15:30-16:00 |
0:30 |
2 |
Lecture: RNA-Seq Alignment and Visualization |
| |
16:00-17:00 |
1:00 |
|
Adaptor Trimming, Alignment, QC and Visualization |
| |
17:00-17:30 |
0:30 |
|
Break |
| |
17:30-19:30 |
2:00 |
|
Integrated Assignment |
| 2 |
08:00-08:30 |
0:30 |
3 |
Breakfast |
| |
08:30-09:00 |
0:30 |
|
Lecture: Expression and Differential Expression |
| |
09:00-10:00 |
1:00 |
|
Expression Estimation with StringTie & HTSeq |
| |
10:00-10:30 |
0:30 |
|
Break |
| |
10:30-12:00 |
1:30 |
|
Differential Expression and Visualization with Ballgown, edgeR |
| |
12:00-13:00 |
1:00 |
|
Lunch |
| |
13:00-13:30 |
0:30 |
4 |
Lecture: Introduction to Alignment Free Analysis |
| |
13:30-14:30 |
1:00 |
|
Expression and DE analysis with kallisto and Sleuth |
| |
14:30-15:00 |
0:30 |
|
Break |
| |
15:00-17:00 |
1:00 |
5 |
Alternative Expression Analysis - Isoform Analysis |
| |
17:00-17:30 |
0:30 |
|
Break |
| |
17:30-19:30 |
2:00 |
|
Integrated Assignment |
| 3 |
08:00-08:30 |
0:30 |
6 |
Breakfast |
| |
08:30-10:00 |
1:30 |
|
Lecture: Transcriptome Assembly |
| |
10:00-10:30 |
0:30 |
|
Break |
| |
10:30-12:00 |
1:30 |
|
De novo RNA-Seq Assembly and Analysis Using Trinity |
| |
12:00-13:00 |
1:00 |
|
Lunch |
| |
13:00-14:30 |
1:30 |
7 |
Lecture: Transcriptome Annotation |
| |
14:30-15:00 |
0:30 |
|
Break |
| |
15:00-17:00 |
2:00 |
|
Transcript Annotation with Trinotate |
| |
17:00-17:30 |
0:30 |
|
Survey and Closing Remarks |
