Website for 2020 MSTP Bioinformatics Bootcamp
Time: July 6-10 8AM-12PM PST
Instructor: Hannah Carter ([email protected])
TA: Meghana Pagadala ([email protected])
Please email us with any questions or concerns!
| Day | Date | Topic | Links | Homework |
|---|---|---|---|---|
| 0 | Before 07/06/2020 | Setup | Day_0 | Generate Keys Installations |
| 1 | 07/06/2020 | Module 1: Unix, TSCC, Installations | Day_1 | Read Hangauer et al. |
| 2 | 07/07/2020 | Module 2: RNA Alignment (STAR, fastqc) | Day_2 | |
| 3 | 07/08/2020 | Module 3: RNA Quantification (featureCounts, samtools, IGV) | Day_3 | |
| 4 | 07/09/2020 | Module 4: RNA Analysis (DESeq2, RPKM, seaborn) | Day_4 | GenePattern Setup |
| 5 | 07/10/2020 | Module 5: GenePattern Workshop | Day_5 |
Biology Meets Programming:Bioinformatics for Beginners
Bioinformatics Algorithms: An Active Learning Approach (YouTube)
BIOM262 Quantitative Methods/Genetics (several notebooks were taken from this course and I highly recommend it if you want an introduction to bioinformatics methods)
BNFO286 Network Biology & Biomedicine
CSE258 Recommender Systems & Web Mining
MED278 Cancer Genomics Journal Club