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Significance assessment

signif_assess.Rd

Significance assessment: empirical p-values are calculated by using the pool of r permuted versions of X0 (clearly, use this function only if 'perm_X0' function was used).

Usage

signif_assess(mND = NULL, BPPARAM = NULL)

Arguments

mND

list; output of 'mND' function

BPPARAM

optional BiocParallelParam instance determining the parallel back-end to be used during evaluation. If NULL, parallel evaluation is disabled using SerialParam(). See ?bplapply.

Value

list with:

  • mND: mND score (mND), corrisponding empirical p-value (p), product of mND score and -log10(p) (mNDp)

  • t: sum of top k first neighbours

  • pl: corrisponding empirical p-values of (t)

  • tp: product of the sum of top k neighbours (t) and -log10(pl)