Description Usage Arguments Details
All PWMs are shuffled at the same time. This function would be too slow to produce empirical P-values, thus we return a z-score from a small number of shuffles.
1 | matrixShuffleZscorePerSequence(scores, sequences, pwms, cutoff = NULL, B = 30)
|
scores |
a set of already calculated scores |
sequences |
either one sequence or a list/set of sequences (objects of type DNAString or DNAStringSet) |
pwms |
a list of PWMs |
cutoff |
if NULL, will use affinity, otherwise will use number of hits over this log2 odds cutoff |
B |
number of replicates, i.e. PWM column shuffles |
The z-scores are calculated for each sequence individually.
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