qb25-answers repository| Week | Date | Instructor | Topic | Due Date | Resubmission Deadline |
|---|---|---|---|---|---|
| 1 | 9/12 | Frederick Tan | Genome Content | 9/19 | 10/3 |
| 2 | 9/19 | Frederick Tan | Sequence Alignment | 9/26 | 10/10 |
| 3 | 9/26 | Rajiv McCoy | Variant Discovery and Genotyping | 10/10 | 10/24 |
| 4 | 10/3 | Frederick Tan | Project Work + HPC Demo | ||
| 5 | 10/10 | Rajiv McCoy | Linear Regression | 10/20 | 10/31 |
| 6 | 10/17 | Departmental Retreat | |||
| 7 | 10/24 | Mike Sauria | Unsupervised Learning | 10/31 | 11/14 |
| 8 | 10/31 | Rajiv McCoy | Simulations | 11/7 | 11/21 |
| 9 | 11/7 | Project Work + Demo | |||
| 10 | 11/14 | Mike Sauria | Sequence Search | 11/21 | 12/5 |
| 11 | 11/21 | Mike Schatz | Genome Assembly | 12/1 | 12/12 |
See Project Work Guide for more details
| Deadline | Assignment | Reference |
|---|---|---|
| 9/19 | Project Topics | Submission Form |
| 9/22 - 26 | Instructor/TA Feedback | Timeful |
| 10/3 | Proposal | |
| 10/24 | Check-in #1 | |
| 11/7 | Peer Review | |
| 11/14 | Check-in #2 | |
| 12/5 | Final Presentation | Shared Drive |
Prep Work: zero-to-python Software Carpentry
All times in ET
Resources for each day (links for assignment, any relevant recordings or slides, etc.) will be linked in the schedule below
| Time | Tuesday | Wednesday | Thursday | Friday |
|---|---|---|---|---|
| 9:00 - 10:00 | Welcome | Python file IO | Git Setup | R - base |
| 10:00 - 11:00 | Laptop orientation | Python dictionaries | Git Practice | R - tidyverse |
| 11:00 - 12:00 | Python datatypes & functions | Assignment | Catch Up | Assignment |
| 12:00 - 1:00 | Lunch | Lunch | Lunch | Lunch |
| 1:00 - 2:00 | Python conditionals, strings, & lists | Assignment cont. | Mini project | Assigment cont. |
| 2:00 - 3:00 | Python loops | Unix | Mini project cont. | R - ggplot2 |
| 3:00 - 4:00 | Assignment | Python scripts | Small group review | Assignment |
| 4:00 - 5:00 | Assignment cont. | Assignment | Small group review | Finished! |