Using the above matrixes, the delay probabilities can be computed as,, and using (8).
Now the remaining question is how D are computed as probabilities.
The probability for regulation can be computed as the probability of observing a non-zero overlap between all predicted binding sites and the ones upstream of the gene, always accounting for the amount of the conserved sequence.
Revised emission probabilities for any X → w can be computed as the sum of probabilities of X-labels at all positions where word w occurs in the corpus, divided by the sum of probabilities of X-labels at all positions, again using (products of) forward and backward probabilities.
If we assume that D are given as probabilities, and that all associations connecting X with Z j are independent, the reliability term can be computed as follows: (2) since the probability that the connection between X and Z j is true is given by the probability that there is at least one true path connecting X with Z j.
However, if L lanes are used to analyze independent samples, then the detection probability can be computed as follows: 2where P detect| p) is calculated by Equation (1) or Procedure 2. We calculate the detection probability for a given number of individuals in a pooled sample for a given coverage depth, threshold, and MAF.
In a Markov model of order T it is assumed that each symbol in a sequence x is independent of all other symbols in x that have distance greater than T. Thus, the likelihood of x can be computed as a product of conditional probabilities:.
For each outcome, the expected number of events will be computed as the sum of predicted probabilities from a multivariable model (logistic regression or zero inflated negative binomial models based on data distribution) derived using data from all other networks with adjustment for confounders.
The final probability P f ( C s | v ) can be computed as a weighted mean of the probabilities obtained using the local P l ( C s | v ) and global P g ( C s | v ) models.
