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firasmidani / amiga

Analysis of Microbial Growth Assays
https://firasmidani.github.io/amiga/
GNU General Public License v3.0
12 stars 3 forks source link

Auc_empirical #4

Closed Edison2021 closed 3 years ago

Edison2021 commented 3 years ago

Hi Firas Thanks for your software that makes PM analysis easier. I wonder if AMiGA can give empirical AUC?

Best Edison

firasmidani commented 3 years ago

The fit function estimates the AUC after modelling a growth curve with Gaussian Process. However, neither the summarize or fit function computes the empirical AUC, i.e. before modelling a growth curve. Still, it should be an easy feature to add to the software and I will try to include it in the next update.

Edison2021 commented 3 years ago

Thanks, hopefully it is coming soon!

Best Edison

firasmidani commented 3 years ago

The summarize function will now automatically compute the empirical AUC. See column OD_Emp_AUC in the summary results table. The empirical AUC is computed without any modifications to the growth curve. If there are any issues with this new feature, please open a new issue. Thank you!

Edison2021 commented 3 years ago

Hi Firas Thanks for the updates. Do I need to reinstall amiga for the function?

Best Edison

firasmidani commented 3 years ago

Yes. If you installed with git, you can simply git pull. Otherwise, please re-download amiga and simply replace your old amiga folder with the new one.