lp:motif-finder

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39. By Chris Mitchell on 2011-06-11

Replaced usage of zip with cleaner use of enumerate, and removed an unused import

38. By Chris Mitchell on 2011-06-08

Added an option to change the number of allowed substitutions. Tidied up the argparse configuration.

37. By Jonathan Grochowski on 2011-06-08

Created unittests for mm.py. Test for generate_string is very fragile. Testing random functions is very difficult.

36. By Chris Mitchell on 2011-06-07

Removed dead code, corrected a docstring, small comment changes.

35. By Chris Mitchell on 2011-06-07

Added some dfa unit tests.

34. By Jonathan Grochowski on 2011-06-06

Stubbed unittest skeletons. All unittests can be run with 'python -m unittest discover from the top-level code directory. Use nose for more fine grained control over tests and to run tests from within the test directory.

33. By Chris Mitchell on 2011-06-06

Updated MM.make_bg_MM to take multiple sequences.

32. By Jonathan Grochowski on 2011-06-06

Cleaned up calculation of z-scores.

31. By Chris Mitchell on 2011-06-06

Removed the "sequence longer than two" assert in make_bg_MM in favor of returning a neutral MM as a sensible default

30. By Jonathan Grochowski on 2011-06-06

Added argparse command line processing.