Material 2013

Lecture slides are in English. Some class exercises are in Hebrew.
To open py files, right-click and "save-as" on your computer. Then right click the file and "Edit with IDLE".

Class	Date	Topics	Material	Class exercises	Last Updated and comments
1	March 12	Introduction and motivation Python basics	Intro.pdf Python_basics_1.pdf basics.py log1.txt
2	March 19	Continuing with Python basics	Python_basics_2.pdf temperature.py log2.txt	python_exercises1.pdf ex1.4_count.py
3	April 2	More python: files and containers Graphs - introduction	Python_basics_3.pdf ProtMolWeight.py Graphs1.pdf	python_exercises2.pdf codons_count.py sc_dna_c1.txt
4	April 9	Graphs - Euler path and Dijkstra's algorithm	Graphs2.pdf dijkstra.py updated after class with spath	graph_exercises1.pdf	Graphs2.pdf updated 8/4 10:00 with minor fixes
5	April 23	Graphs - sequencing and assembly (Hamilton paths, Traveling Salesperson, complexity and NP-complete problems)	Graphs3.pdf eulerpath.py log5.txt	In the lecture presentation
6	April 30	Solving string problems with hashing	hash.pdf common_substring.py log6.txt	In the lecture presentation at.zip solutions: hash_sol.py
7	May 7	Guest lecture: Prof. Benny Chor
8	May 21	Data structures for strings: Trie and Suffix tree	trie.pdf trie.py log8.txt	In the lecture presentation
9	May 28	Deterministic Finite Automata and Regular Expressions	RE.pdf re.py log9.txt	In the lecture presentation. solutions: re_sol.py
10	June 4	Digital Image Processing 1 - image representation and Otsu segmentation	Images1.pdf images1.zip log10.txt	In the lecture presentation. upside_down solution (py)	install PIL: http://www.lfd.uci.edu/~gohlke/pythonlibs/#pil
11	June 11	Digital Image Processing 2 - Edge Detection and Denoising	images2.pdf images2.zip	In the lecture presentation.
12	June 18	Discrete models for regulatory networks	Discrete.pdf bool.py	In the lecture presentation. solution: bool_with_loops.py
13	June 25	Discrete models 2 - The "Game of Life" and Cellular Automata	CA.pdf CA-swampy.py Young84.pdf KuschMarkus1996.pdf		To run the code you need to work with python 2.7: http://www.python.org/download/releases/2.7.5/ and install swampy (instructions in pdf) You'll also need PIL for python 2.7: http://www.lfd.uci.edu/~gohlke/pythonlibs/#pil