-
Notifications
You must be signed in to change notification settings - Fork 11
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
New class to help design experiments based on assaytools MCMC data #80
base: master
Are you sure you want to change the base?
Commits on Mar 29, 2017
-
Initial commit of class that can be used to optimize the protein conc…
…entratin in assays
Configuration menu - View commit details
-
Copy full SHA for 12760cf - Browse repository at this point
Copy the full SHA 12760cfView commit details
Commits on Mar 30, 2017
-
Apparantly functioning version of code. It can estimate the coefficie…
…nt of variation and total error of future experiments as a function of protein concetration.
Configuration menu - View commit details
-
Copy full SHA for 302d517 - Browse repository at this point
Copy the full SHA 302d517View commit details
Commits on Apr 5, 2017
-
Tidied up example for using AssaySimulator to predict optimal protein…
… concentrations. Cleaned up functions in AssaySimulator.
Configuration menu - View commit details
-
Copy full SHA for c3e2bb3 - Browse repository at this point
Copy the full SHA c3e2bb3View commit details
Commits on Apr 7, 2017
-
Added a simple function to compute the coefficient of variation, vari…
…ance, and bias for different experimental parameters. The jupyter notebook was updated to reflect this. Two superfluous files were removed.
Configuration menu - View commit details
-
Copy full SHA for 8367369 - Browse repository at this point
Copy the full SHA 8367369View commit details -
Removed the tracking of two files. One is just a placeholder and the …
…other is superfluous.
Configuration menu - View commit details
-
Copy full SHA for abf8d83 - Browse repository at this point
Copy the full SHA abf8d83View commit details
Commits on Apr 10, 2017
-
Addressed comments by jchodera, including:
-improving doctrings and a few comments -removing extra factor of 100 from CV estimation -added background fluorescence to data simulation when inner_filter=False
Configuration menu - View commit details
-
Copy full SHA for aec0a1e - Browse repository at this point
Copy the full SHA aec0a1eView commit details
Commits on Apr 12, 2017
-
Fixed bug that resulted in abnormally high predicted errors. The func…
…tionality of AssaySimulator was slighlty changed so that instead of fitting a single binding free energy, multiple estimates of the free energy are returned instead.
Configuration menu - View commit details
-
Copy full SHA for 97f08a5 - Browse repository at this point
Copy the full SHA 97f08a5View commit details
Commits on May 15, 2017
-
Merge pull request #103 from choderalab/master
merging master into experiment_design
sonyahanson committedMay 15, 2017 Configuration menu - View commit details
-
Copy full SHA for 668264f - Browse repository at this point
Copy the full SHA 668264fView commit details -
updated assay simulator to be able to vary delG
sonyahanson committedMay 15, 2017 Configuration menu - View commit details
-
Copy full SHA for feae9d5 - Browse repository at this point
Copy the full SHA feae9d5View commit details -
updated protein conc for new format
sonyahanson committedMay 15, 2017 Configuration menu - View commit details
-
Copy full SHA for 5ef1e2a - Browse repository at this point
Copy the full SHA 5ef1e2aView commit details
Commits on May 16, 2017
-
added deltaG variation to ipynb
sonyahanson committedMay 16, 2017 Configuration menu - View commit details
-
Copy full SHA for be1a08a - Browse repository at this point
Copy the full SHA be1a08aView commit details
Commits on Jun 2, 2017
-
To speed-up the run-time of the least-squares fitting of DeltaG, the …
…intial guess starts at the true value. In addition, the gradient tolerance of the BFGS optimizer was also readuced for speed.
Configuration menu - View commit details
-
Copy full SHA for 12db131 - Browse repository at this point
Copy the full SHA 12db131View commit details -
For each estimated vector of Delta Gs, the intensity that each was fi…
…tted to is now outputed. Notebook updated accordingly.
Configuration menu - View commit details
-
Copy full SHA for 6480347 - Browse repository at this point
Copy the full SHA 6480347View commit details