Cox_PH: Fit CoxPH model to study association between...
In sealx017/MIAMI: Mutual Information-based Analysis of Multiplex Imaging data

Fit CoxPH model to study association between survival/recurrence outcome and estimated EQMi*

1	Cox_PH(clinical_dat, cov, EQMI_dat, degree = 1)

`clinical_dat`	is a data.frame whose first column is "ID" denoting the subject IDs. The next two columns respectively correspond to the time (time to death or time to recurrence) and censoring indicator ( = 0 imples death or recurrence).
`cov`	is a data.frame whose first column is "ID" denoting the subject IDs. The other columns correspond to different covariates.
`EQMI_dat`	corresponds to the output of the function QMI_of_all_images. It is a matrix of estimated EQMI* of the sets of markers, (1, 2), (1, 2, 3), (1, 2, 3, 4), ..., and (1, 2, ..., p), where p is the number of available markers.
`degree`	corresponds to the degree of polynomial to use in the CoxPH model. If degree > 1, a non-linear relationship between the clinical outcomes and EQMI* is tested.