Biocyc Tier 2 & 3 Dataset Question #3
Description
I have a question about how the EC abundances were calculated in the BioCyc T2&3 dataset.
How I understand how the EC abundances were calculated in the T1 golden dataset is that the EC abundances in each pathway present in the organism are summed up together.
For example, EC1 and EC2 participate in pathway 1 each with an abundance of 1.
EC1 also participates in pathway 2 with an abundance of 1.
So EC1 for the organism would have an abundance of 2.
I was able to reproduce the EC abundances for the T1 golden dataset using the pathway2ec.pkl binary matrix on Zenodo but I got different EC abundances for the BioCyc T2&3 dataset so I was wondering how the EC abundances were calculated in the Biocyc T2&3 dataset.