@olibclarke, in the FSC .txt files, there’s a column called
fsc_noisesub_true
I believe that’s what you’re referring to as the phase-randomized FSC - it is
fsc_t = masked FSC between original A and original B
fsc_n = masked FSC between A with high-res phases randomized, and B with high-res phases randomized
fsc_noisesub_true = (fsc_t - fsc_n) / (1.0 - fsc_n)
This is equation 4 from https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3834153/