Man pages for selectKSigs
Selecting the number of mutational signatures using a perplexity-based measure and cross-validation
| calcPMSLikelihood | A function for calculating the log-likelihood from the data... |
| Calculate_Likelihood_test | Output the maximum potential scale reduction statistic of all... |
| 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... |
| 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... |
| 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... |
