Schedule
All posted times are Pacific time zone. At least one break will be provided each morning and afternoon.
Monday, July 19
| 8:50 am | Zoom session starts |
| 9:00 am | Introduction to the Command Line Interface |
| 12:00 pm | Lunch |
| 1:00 pm | Basics of Cluster Computing |
| 2:00 pm | Introduction to R |
| 5:00 pm | Zoom session ends |
Tuesday, July 20
| 8:50 am | Zoom session starts |
| 9:00 am | TBA |
| 12:00 pm | Lunch |
| 1:00 pm | What is a FASTQ file? |
| 1:30 pm | Preprocessing with HTStream |
| 2:30 pm | MultiQC |
| 3:30 pm | Mapping and Alignment |
| 1:00 pm | What is a BAM file? |
| 2:00 pm | Variants in IGG |
| 5:00 pm | Zoom session ends |
Wednesday, July 21
| 8:50 am | Zoom session starts |
| 9:00 am | Data reduction: GATK, FreeBayes, and DeepVariant |
| 12:00 pm | Lunch |
| 1:00 pm | What is a VCF file? |
| 1:30 pm | Comparison of GATK, FreeBayes, and DeepVariant results |
| 5:00 pm | Zoom session ends |
Thursday, July 22
| 8:50 am | Zoom session starts |
| 9:00 am | Data analysis: Plink, and normal association vs TDT |
| 11:00 am | Lecture TBA |
| 12:00 pm | Lunch |
| 1:00 pm | Comparison of GATK, FreeBayes, and DeepVariant results |
| 3:00 pm | Lecture TBA |
| 5:00 pm | Zoom session ends |
Friday, July 23
| 8:50 am | Zoom session starts |
| 9:00 am | Visualization in R |
| 11:00 am | Experimental Design |
| 12:00 pm | Lunch |
| 1:00 pm | Visualization in R |
| 3:00 pm | What is Bioinformatics? |
| 5:00 pm | Zoom session ends |