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Published 20 hours ago • verified publisher icon jaswindersingh2

How did you determine the threshold "0.335"

Open HarveyYan opened this issue 3 years ago • 2 comments

Kudos for the nice work. One lttle question I have wondered whilst reading your paper was about that threshold which converts probabilities to basepairs. Would you mind clarifying a bit how it was chosen?

HarveyYan avatar Feb 28 '21 03:02 HarveyYan

Hi Yan,

The threshold was determined by maximizing the Matthews Correlation Coefficient (MCC) on validation set (VL1). MCC was calculated for 1000 values between 0 and 1 at sampling rate 0.001. MCC on validation set was maximum at 0.335, therefore, we selected this value. All the model parameters were optimized for the validation sets.

Jaswinder

jaswindersingh2 avatar Feb 28 '21 03:02 jaswindersingh2

Thanks for the prompt reply!

HarveyYan avatar Feb 28 '21 03:02 HarveyYan