The help for cov() clearly notes that pairwise only works with pearson. I'm 
curious why as it is surely not computational. Certainly an analyst knows the 
nature of the missingness in their data and if it's not MCAR then applying 
pairwise to spearman would have the same inferential consequence as when 
pearson is used with data that are also not MCAR.

Looking for enlightenment here.

Thanks,
Harold


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