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RNNmicrobial

Contains the scripts for running predRNN on CADES (https://cades.ornl.gov/), for predicting microbial growth of a population made of Pseudomonas Aeruginosa and mutant. Scripts for obtaining population curves and colony areas are also included.

predRNN is a Recurrent Neural Network: https://github.com/thuml/predrnn-pytorch

Relevant papers on P. Aeruginosa for this repo:

https://www.frontiersin.org/articles/10.3389/fmicb.2018.00033/full

https://www.jove.com/t/55701/assembly-tracking-microbial-community-development-within-microwell

Video frame prediction of microbial growth with a recurrent neural network: https://www.frontiersin.org/articles/10.3389/fmicb.2022.1034586/full

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