Any help very much appriciated!!
I have a very large proteomic data set which I have analysed using three seperate approaches. I would now like to assess which of these approches has performed better for me data set by plotting an ROC curve however I can not work out what data is required for this.
For context my data is a list of proteins which have been detected as 'interactors' of mutant ion channels. I have curated a 'postivie list' of previously confirmed interacotrs and a 'negative list' of common contaminating proteins. From these list I would like to calculate the TPR and FPR and plot the ROC curve for each approach. However, from what I can see from examples and previous questions, people that are using the ROC function already know their TPR and FPR.
Due to the size of my data set I could not calcualte this manually for every threshold between 0 and 1. I could calculate the rates for a single given threshold.
I was wondering if anyone could tell me what input data I need for this function? Can you simply input your 'postive' and 'negative' list and calculate the TPR and FPR for each threshold in matlab, or do i need to already have this information?
Many thanks to anyone that can give me some adivce!