calcPMSLikelihood | A function for calculating the log-likelihood from the data and parameters |
Calculate_Likelihood_test | Output the maximum potential scale reduction statistic of all parameters estimated |
convertFromTurbo_F | Restore the converted parameter F for turboEM |
convertFromTurbo_Q | Restore the converted parameter Q for turboEM |
convertToTurbo_F | Convert the parameter F so that turboEM can treat |
convertToTurbo_Q | Convert the parameter Q so that turboEM can treat |
cv_PMSignature | Output the maximum potential scale reduction statistic of all parameters estimated |
getBG | Get the statsus of using the background signature |
getCounts | Get the count data in a matrix |
getExposures | Get a matrix of mutational exposures of signatures |
getFeatures | Get a vector of possible features |
getFeatureVec | Get a matrix of feature vector list |
getK | Get the number of signatures |
getLL | Get the values of loglikelihood |
getLogLikelihoodC | Calculate the value of the log-likelihood for given parameters |
getSamplelist | Get the sample list |
getSamplelistG | Get the sample list |
getSignatures | Get an array of signature feature distributions |
getTranscription | Get the statsus of specifying the transcription bias |
select_kth_fold | Output the training data or test data |
splitG | Output the maximum potential scale reduction statistic of all parameters estimated |