Benchmarking Splits

Benchmarking splits used to evaluate the LinkPhinder and other protein phosphorylation prediction models. The XY numbers in the benchmark folder names reflect the train-test data ratio (e.g. 'benchmark9010' means the training and testing data are 90% and 10%, respectively, of the benchmark dataset). The nZ number then means the number of negatives per each positive (e.g. 'benchmark7030n10' means a 70/30 train/test split with ten negatives per each positive). PhosphoSitePlus (https://doi.org/10.1093/nar/gku1267) was used as the benchmark dataset in most cases, with the exception of folders tagged with 'cutillas20' (this is based on the kinase-substrate interaction dataset published in https://doi.org/10.1038/s41587-019-0391-9). The columns in the training and testing split files correspond to [TODO: fill in the details here].