Using ftINIT with proteomics and gene sets

[NantiaL]

Dear Team,

I would like to use the ftINIT algorithm with proteomics data, and I wanted to confirm whether I am calling the function correctly and placing the data_struct variable—which contains all the necessary data—in the appropriate position within the function call.

ftINIT(prepData, data_struct.tissues{1}, [], [], data_struct, {}, getHumanGEMINITSteps('1+1'), false, true);

Additionally, I generated several models sequentially using proteomics data ,from different samples but I noticed that all of them ended up with the same set of genes—not just the same number, but the exact same gene content. Do you have any idea why this might be happening? Is this probably because the absence of trnascriptomic data to feed the algorithm?