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Enrich uses the frequency of each variant before and after selection to calculate an enrichment ratio, which is used to estimate fitness.
To evaluate all possible scenarios of divergence, which differ in the number of unique divergence parameters and therefore divergence complexity, we used model-based inference and model-based selection to calculate evidence ratios and rank all possible models [ 90- 92].
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After 2 days, the colonies on the YPD plates were counted and used to normalize the number of colonies on the selection plate to calculate the survival probability.
A good heuristic to determine whether evolution will ultimately become dominated by selection is to calculate N e s max (Equation 11), which gives the maximal population-scaled selection coefficient.
Specifically, we computed a context-transition scoring matrix M based on the paths included in 19 maps, and then used the matrix M and the label-selection algorithm to calculate the best score for each signalling path in the two left-out maps.
Dekkers [ 17] developed a method using selection index theory to calculate the genetic response expected from incorporating genomic information into a selection index.
In order to evaluate the statistical significance of the operating selective pressure on MOMP specific domains, a codon-based Z-test of selection was performed to calculate the probability (95% confidence interval) for rejecting the null hypothesis of strict-neutrality (dN = dS) in favor of the positive (dN>dS) or purifying selection (dN
To measure reliability of abstraction in our prespecified form, both authors independently abstracted a random selection of publications to calculate agreement rate and Cohen kappa [ 26].
The model was then applied to the test set generated via the bootstrapping selection in order to calculate the predictive accuracy of the test set.
It was trained using all five rounds of positive selection and used to calculate Z-scores for several highly enriched potential aptamers.
For each outcome instrument, logistic regression with stepwise selection was used to calculate the model yielding the highest ROC AUC and R using numeric values for CRP, BASFI, age and enthesitis score; categorical values for treatment and HLA-B27 genotype and their interaction terms.
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