Adding quickmodel example and a new competition assay modeling notebook.

choderalab / assaytools

Modeling and Bayesian analysis of fluorescence and absorbance assays.

http://assaytools.readthedocs.org

GNU Lesser General Public License v2.1

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Adding quickmodel example and a new competition assay modeling notebook. #71

Closed sonyahanson closed 7 years ago

sonyahanson commented 7 years ago

First, I'm adding quickmodel examples as suggested in #68.

sonyahanson commented 7 years ago

Have now added a better experimental modeling notebook for the competition assay that combines (1) John's old notebook that plays with imatinib concentration and (2) the competition grid notebook, which I think results in a more complete notebook to help us design competition assays.

https://github.com/choderalab/assaytools/blob/data_clean/examples/competition-fluorescence-assay/1c%20Simulating%20Experimental%20Fluorescent%20Competition%20Assay%20Data.ipynb

sonyahanson commented 7 years ago

I'm happy to merge this. @jchodera I've removed your imatinib concentration notebook in favor of this new one, let me know if you disagree with this course of action.

jchodera commented 7 years ago

Sure, looks great!

sonyahanson commented 7 years ago

Added two notebooks to examples:

one which using our simple bayesian model to fit simulated data, so that we can see if we can reproduce some of the problems we're seeing with real data.
and another which reproduces the improvement in information in fluorescence data when the protein concentration is decreased that Nick Levinson clued us in on last week.

nicksproteinconc

jchodera commented 7 years ago

Can we merge this PR in, @sonyahanson?

jchodera commented 7 years ago

Whoops, looks like you already said it was OK!