Data and code underlying the publication: Machine Learning-Assisted Pathway Optimization in Large Combinatorial Design Spaces: a p-Coumaric Acid Case Study

This repository consists of the code necessary for reproduction of results in the paper Machine Learning-Assisted Pathway Optimization in Large Combinatorial Design Spaces: a p-Coumaric Acid Case Study. The data consists of :NMR screening data of ~3000 engineered S. cerevisiae strains (in code_mlassisted_pca.zip, data/raw/CycleTUD/), and follow-up DBTL cycle (data/raw/CycleTUDValidation)DNA sequencing data (.fasta format, in 4tu_mlassisted_pca_fasta) and coverage per contig files. Processed count matrices and numerical matrices that were downstream-processed from the DNA sequencing data files using .gff biobricks files.<br>Code is also available on the github repository https://github.com/AbeelLab/ml-assisted-p-coumaric-acid-optimization