Bioinformatics Programming Classes

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Reading

  • Recommended book: Learning Python, Mark Lutz, David Ascher, O'Reilly Media

... after this class ...

If you are thinking of choosing the Bioinformatics profile (even if you're not sure yet) you should already (now) enroll in the course Inleiding programmeren (Python) course ID 401096 via VUnet.

Tutorials PDF's and data files

All of the tutorials PDFs and required files can be found on canvas.

Course Information

Class 1 - introduction to linux

Class 2 - python shell: print, operator, types, if Exercise: 'calculation' script

Class 3 - lists and loops Exercise: sum i over n; n!

Class 4 - Functions, scope, namespace, import, while exercise

Class 5 - file I/O, dictionaries, string manipulation (e.g., split) exercise: codon table & translation

Class 7 - Putting everything together exercise: GO parsing

Grading

After class 4 there will be a short written exam to test your knowledge of the topics discussed so far. On the week 8 you will have the final test. The final test will be a set practical assignments completed in a lab room. Your final grade is an average of mid-term and final tests.

Contact

Anton Feenstra

k.a.feenstra@vu.nl

TA: Olga Ivanova

osivanova@student.vu.nl


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