Uses of Class
org.strbio.util.NeuralNet

Packages that use NeuralNet

org.strbio.mol.lib.pred2ary	These classes represent conceptual objects used in the Pred2ary program, which are probably not very useful for other purposes.
org.strbio.util	These classes perform general purpose utility functions.

Uses of NeuralNet in org.strbio.mol.lib.pred2ary

Fields in org.strbio.mol.lib.pred2ary declared as NeuralNet

NeuralNet[]	TrainingSet.cnet1
NeuralNet	TrainingSet.cnet4
NeuralNet	TrainingSet.net
NeuralNet	TrainingSet.net_2

Methods in org.strbio.mol.lib.pred2ary with parameters of type NeuralNet

double	TPSet.fcut2ary(NeuralNet net, int sample, Printf outfile) find best 2ary cutoff
void	TPSet.fcutClass(NeuralNet cnet4, NeuralNet[] cnet1, Printf outfile) find cutoff, and compute class stats
void	TPSet.fcutClass(NeuralNet cnet4, NeuralNet[] cnet1, Printf outfile) find cutoff, and compute class stats
double	TPSet.fcutLvl2(NeuralNet net, int sample, Printf outfile) find cutoff, and compute stats on a training set.
void	TPSet.NetVars.getNetworkStats(int whichnet, NeuralNet n) This automatically figures out network topology from a loaded network. 0 = first level 2ary 1 = lvl 2 2ary 2 = class
void	TPSet.predict2ary(NeuralNet net, int sample, Printf outfile) do a 2ary prediction
void	TPSet.predict2aryHE(NeuralNet net) Predict level 1 H and E using network.
void	TPSet.predictClass(NeuralNet cnet4, NeuralNet[] cnet1, Printf outfile) do class prediction
void	TPSet.predictClass(NeuralNet cnet4, NeuralNet[] cnet1, Printf outfile) do class prediction
void	TPSet.predictClassRaw(NeuralNet cnet4, NeuralNet[] cnet1) predict class using both 4-output and 1-output networks.
void	TPSet.predictClassRaw(NeuralNet cnet4, NeuralNet[] cnet1) predict class using both 4-output and 1-output networks.
void	TPSet.predictLvl2(NeuralNet net, int sample, Printf outfile) do a prediction
void	TPSet.predictLvl2HE(NeuralNet net) do level 2 prediction
void	TrainingSet.Present2ary.presentPatterns(NeuralNet n)
void	TrainingSet.PresentLvl2.presentPatterns(NeuralNet n)
void	TrainingSet.PresentClass4.presentPatterns(NeuralNet n)
void	TrainingSet.PresentClass1.presentPatterns(NeuralNet n)

Uses of NeuralNet in org.strbio.util

Methods in org.strbio.util with parameters of type NeuralNet

void	NeuralNet.Trainable.presentPatterns(NeuralNet n) This method should not modify any weights itself; just present all the patterns and call prop() and backprop() for each.