BPB10
Bioinformatics using Python for BiologistsDetailed description |
Course Timetable (provisional) |
BPB10 | Bioinformatics using Python for Biologists |
Mon, April 19th |
Day #1
|
09:30 - 11:00 | Introduction to Linux commands |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Introduction to the Python Programming Language: Python interpreter, interactive mode, scripts, modules, variables, functions, built-ins, namespaces |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Practicals |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Data structures: numbers, strings, lists, dictionaries , tuples, sets |
Tue, April 20th |
Day #2
|
09:30 - 11:00 | More on data structures |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Control flow tools (if, for, while, break, continue, else, pass) |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Practicals |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Input and Output |
Wed, April 21st |
Day #3
|
09:30 - 11:00 | Classes and instances |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Error handling |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Practicals |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Important modules: sys, os, os.path, re, cPickle, copy, math, numpy |
Thu, April 22nd |
Day #4
|
09:30 - 11:00 | Introduction to Biopython (I) |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Introduction to Biopython (II) |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Practicals |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Working with DNA and protein sequences |
Fri, April 23rd |
Day #5
|
09:30 - 11:00 | Extracting information from biological resources: parsing Swiss-Prot files, PDB files, ENSEMBLE records, blast output files, etc. (I) |
11:00 - 11:30 | Coffee Break |
11:30 - 12:30 | Extracting information from biological resources: parsing Swiss-Prot files, PDB files, ENSEMBLE records, blast output files, etc. (II) |
12:30 - 14:00 | Lunch Break |
14:00 - 16:00 | Running external applications (e.g. BLAST) locally and from a script |
16:00 - 16:30 | Tea Break |
16:30 - 18:00 | Working with motifs. Final wrap-up session. |
Course Homepage |
Instituto Gulbenkian de Ciência, Apartado 14, 2781-901 Oeiras, Portugal Last updated: January 19th 2010 |