An Introduction to Solving Biological Problems with Python BeginnersUpdated
This course provides a practical introduction to the writing of Python programs for the complete novice. Participants are lead through the core aspects of Python illustrated by a series of example programs. Upon completion of the course, attentive participants will be able to write simple Python programs and customize more complex code to fit their needs.
Course materials are available here.
Please note that the content of this course has recently been updated. This course now mostly focuses on core concepts including Python syntax, data structures and reading/writing files. Functions and modules are now the focus of a new 1-day course, Python functions and modules: best practices.
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.
- Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
- Please be aware that these courses are only free for University of Cambridge students. All other participants will be charged a registration fee in some form. Registration fees and further details regarding the charging policy are available here
- Further details regarding eligibility criteria are available here
- The course is suitable for complete beginners and assumes no prior programming experience (beyond the ability to use a text editor).
- A very basic knowledge of UNIX would be an advantage, but nothing will be assumed and extremely little will be required.
Number of sessions: 2
| # | Date | Time | Venue | Trainers | |
|---|---|---|---|---|---|
| 1 | Mon 10 Apr 2017 09:30 - 17:30 | 09:30 - 17:30 | Bioinformatics Training Room, Craik-Marshall Building | map | Cristian Riccio, G.E. Parada-Gonzalez |
| 2 | Tue 11 Apr 2017 09:30 - 17:30 | 09:30 - 17:30 | Bioinformatics Training Room, Craik-Marshall Building | map | Cristian Riccio, G.E. Parada-Gonzalez |
Bioinformatics, Biology, Data handling
After this course you should be able to:
- Edit and run Python code
- Write file-processing python programs that produce output to the terminal and/or external files
- Create stand-alone python programs to process biological data
- Know how to develop your skills in Python after the course
During this course you will learn about:
- Core concepts about Python syntax: Data types, blocks and indentation, variable scoping, iteration, functions, methods and arguments
- Different ways to control program flow using loops and conditional tests
- Writing functions and best-practice ways of making them usable
- Reading from and writing to files
- Code packaging and Python libraries
- How to work with biological data using BioPython
Presentations, demonstrations and practicals
| Day 1 | Topics | Speaker(s) | |
| 09:30 - 10:00 | Introduction | Cristian Riccio, G.E. Parada-Gonzalez | |
| 10:00 - 10:30 | Print and Variables | ||
| 10:30 - 10:45 | Tea/Coffee Break | ||
| 10:45 - 12:15 | Simple data types, Arithmetic and Saving code in files | Cristian Riccio, G.E. Parada-Gonzalez | |
| 12:15 - 13:30 | Lunch | ||
| 13:30 - 14:30 | Collections: Lists and String | Cristian Riccio, G.E. Parada-Gonzalez | |
| 15:30 - 15:45 | Tea/Coffee Break | ||
| 14:45 - 15:45 | Collections: Sets and Dictionaries | Cristian Riccio, G.E. Parada-Gonzalez | |
| 15:45 - 16:00 | Wrap-Up | ||
| Day 2 | |||
| 9:30 - 9:45 | Introduction | Cristian Riccio, G.E. Parada-Gonzalez | |
| 9:45 - 10:45 | Conditional execution | ||
| 10:45 - 11:00 | Tea/Coffee Break | ||
| 11:00 - 12:30 | Loops | Cristian Riccio, G.E. Parada-Gonzalez | |
| 12:30 -13:45 | Lunch | ||
| 13:45 - 15:00 | Files | Cristian Riccio, G.E. Parada-Gonzalez | |
| 15:00 - 15:15 | Tea/Coffee Break | ||
| 16:15 - 16:30 | What we've learned | ||
- Free for University of Cambridge students
- £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
- It remains the participant's responsibility to acquire prior approval from the relevant group leader, line manager or budget holder to attend the course. It is requested that people booking only do so with the agreement of the relevant party as costs will be charged back to your Lab Head or Group Supervisor.
- £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
- £ 100/day for all Industry participants. These charges must be paid at registration
- Further details regarding the charging policy are available here
2 days
A number of times per year
Booking / availability