Inheritance diagram for ymir::SGAlgorithm:

Public Member Functions
virtual std::vector< prob_t >	statisticalInference (const ClonesetView &repertoire, ProbabilisticAssemblingModel &model, const AlgorithmParameters &algo_param=AlgorithmParameters().set("niter", 10).set("block.size", 5000).set("alpha",.6).set("beta", 1.).set("K", 2.).set("prebuild", false).set("recompute.all", false).set("sample", 50000), ErrorMode error_mode=NO_ERRORS) const

Public Member Functions inherited from ymir::StatisticalInferenceAlgorithm
void	filterOut (const ClonesetView &rep_nonc, const MAAGRepertoire &maag_rep, vector< prob_t > &prob_vec, vector< bool > &good_clonotypes, size_t &removed, size_t &zero_prob, size_t &no_alignments) const

Protected Member Functions
void	updateTempVec (MAAGForwardBackwardAlgorithm &fb, MAAG &maag, ModelParameterVector &new_param_vec, vector< bool > &changed, ErrorMode error_mode) const

void	updateModel (ProbabilisticAssemblingModel &model, ModelParameterVector &new_param_vec, MAAGRepertoire &maag_rep, vector< prob_t > &prob_vec, prob_t &prev_ll, vector< bool > &changed, prob_t step_k, ErrorMode error_mode) const

Protected Member Functions inherited from ymir::EMAlgorithm
bool	updateTempVec (MAAGForwardBackwardAlgorithm &fb, MAAG &maag, ModelParameterVector &new_param_vec, ErrorMode error_mode) const

void	updateModel (ProbabilisticAssemblingModel &model, ModelParameterVector &new_param_vec, MAAGRepertoire &maag_rep, vector< prob_t > &prob_vec, prob_t &prev_ll, size_t removed, ErrorMode error_mode) const

The documentation for this class was generated from the following file:

Public Member Functions

Protected Member Functions