COSAM » Bioinformatics Bootcamp » AU Bioinformatics Bootcamp Schedule 2018
Auburn University Bioinformatics Bootcamp 2020
June 1st - 5th, 2020
Instructors: Les Goertzen, Rita Graze, Ken Halanych, Jamie Oaks
Laurie Stevison, & Xu Wang
Assistants: TBD
Laurie Stevison, & Xu Wang
Assistants: TBD
This tentative schedule will be adjusted as needed.
Sunday, May 31 - Arrive in Auburn
| Monday, June 1 | |
| 8:30 – 12:00 |
Introduction, review of sequencing technologies, crash course in Linux command line, data formats and quality control |
| 12:00 – 1:30 | Lunch |
| 1:30 – 4:00 | Genome, transcriptome, algorithms, developments |
| 4:00 - 5:00 |
Basic Scripting |
| 6:00 | Group Social |
| Tuesday, June 2 |
|
| 8:00 – 12:15 | Assessment and annotation of sequence assemblies |
| 12:00 – 1:30 | Lunch |
| 1:30 – 5:00 | MITOS results, annotation Trinotate, parsing with awk, grep, & sed |
| Wednesday, June 3 |
|
| 8:45 – 12:15 |
Mapping reads to references and SAM/BAM, BWA, Bowtie2, SAMtools |
| 12:15 – 1:30 | Lunch |
| 1:30 – 5:00 | Variant (SNP/INDEL) calling from mapped reads, Bowtie2, SAMtools, BCFtools |
| Thursday, June 4 |
|
| 8:00 – 12:00 | Analyses of RNA expression data, Bowtie2, eXpress, awk, grep and sed |
| 12:00 – 1:00 | Lunch |
| 1:15 – 2:30 | Versioning and reproducibility |
| 3:15 |
Keynote Seminar: TBA |
| 5:30 |
Social and Bootcamp Banquet |
|
Friday, June 5 |
|
| 8:45 – 12:15 | Visualization of data |
| 12:15 – 1:30 | Lunch |
| 1:30 – 4:00 | Capstone Exercise |
Last Updated: 02/19/2020