Introduction to Python for Life Sciences

Jupyter notebooks for the MSc introduction to python course. A one week course that handles the basics of python with examples from the Life Sciences field.

NOTE: This a Python 2.7 course

Visualise the execution of your code

http://pythontutor.com/visualize.html#mode=edit

---

Assignment:

• description: https://drive.google.com/file/d/0B1UNon8v26XsbkdwR0ZzbjQ0dUE/view?usp=sharing

Data for the assignment:

• features: https://drive.google.com/file/d/0B-Z60zotogd1Mk4tVEhGTzJ3SzA/view?usp=sharing
• sequences: https://drive.google.com/file/d/0B-Z60zotogd1SHdIUGVuRlFPNXc/view?usp=sharing

---

Installing Jupyter locally

http://jupyter.readthedocs.io/en/latest/install.html

1. Download or clone this repository
2. Start the notebook service
3. Navigate to the appropriate folder
4. Happy coding

Working online/in the cloud

https://cocalc.com/

1. Download this repository [https://github.com/UMCUGenetics/IntroductionPython/archive/master.zip]
2. Register on CoCalc
3. Upload the data and notebooks (please maintain the appropriate folder structure)
4. Happy coding

Course schedule

Time slot	Mon 23	Tue 24	Wed 25	Thu 26	Fri 27
9:00-9:15	Introduction	-	-	-	-
9:15-12:15	Strings & Numbers	List & Tuples	Functions & Modules	Regular Expressions	Ensemble
12:15-13:00	Lunch	Lunch	Lunch	Lunch	Lunch
13:00-15:30	Boolean & Loops	Dictionary	Plotting	Files & Parsing	Exam
15:30-16:30	Wrap-up	Wrap-up	Wrap-up	Wrap-up	-

Links to slides

https://drive.google.com/open?id=0B-Z60zotogd1eGhCSEI1RWplT2c

• Day 1
  • Welcome: https://drive.google.com/file/d/0B-Z60zotogd1UkZUNlJBaFlsZk0/view?usp=sharing
  • Lecture: https://drive.google.com/file/d/0B-Z60zotogd1TkJWUFowUU1WUHM/view?usp=sharing
• Day 2
  • A: https://drive.google.com/file/d/0B-Z60zotogd1emdrcUw2NmV0WVU/view?usp=sharing
  • B: https://drive.google.com/file/d/0B-Z60zotogd1WWFQS3Z6eE5LOWc/view?usp=sharing
• Day 3
  • A: https://drive.google.com/file/d/0B-Z60zotogd1UmlJbU1HUDFvVFU/view?usp=sharing
  • B: https://drive.google.com/file/d/0B-Z60zotogd1MXI5RGRkbDRpbDQ/view?usp=sharing
• Day 4
  • A: https://drive.google.com/file/d/0B-Z60zotogd1dUsxMG9abURUOUU/view?usp=sharing
  • B: https://drive.google.com/file/d/0B-Z60zotogd1MEc3U3BfMV9ad3c/view?usp=sharing
  • C: https://drive.google.com/file/d/0B-Z60zotogd1M0gyVFdxelFiQlk/view?usp=sharing
• Day 5
  • https://drive.google.com/file/d/0B1UNon8v26XscndhX2RXcURqOGs/view?usp=sharing