export(peperr, perr, extract.fun, resample.indices, aggregation.pmpec, complexity.ipec.CoxBoost, complexity.mincv.CoxBoost, fit.CoxBoost, fit.coxph,
PLL, PLL.CoxBoost, predictProb, predictProb.CoxBoost, predictProb.survfit, predictProb.coxph, pmpec, fit.LASSO, aggregation.misclass, aggregation.brier, complexity.LASSO)

PLL, PLL.CoxBoost, PLL.coxph, predictProb, predictProb.CoxBoost, predictProb.survfit, predictProb.coxph, pmpec, fit.LASSO, aggregation.misclass, aggregation.brier,

export(peperr, perr, pmpec, extract.fun, resample.indices,

export(peperr, perr, pmpec, extract.fun, resample.indices, ipec,

complexity.ipec.CoxBoost, complexity.ripec.CoxBoost, complexity.mincv.CoxBoost, complexity.LASSO, complexity.ipec.rsf_mtry,
predictProb, predictProb.CoxBoost, predictProb.survfit, predictProb.coxph, predictProb.rsf,

complexity.ipec.CoxBoost, complexity.ripec.CoxBoost, complexity.mincv.CoxBoost, complexity.LASSO, fit.CoxBoost, fit.coxph, fit.LASSO, PLL, PLL.CoxBoost, PLL.coxph,
importFrom("graphics", "boxplot", "hist", "legend", "lines", "plot",
importFrom("stats", "binomial", "glm", "predict", "quantile",

useDynLib(peperr, .registration = TRUE, .fixes = "C_")

importFrom("methods", setClass, setGeneric, setMethod, representation, new)
exportClasses(Sequences, Descriptors, MetricParams, MotifModelSet, MotifModel)
export(default.MetricParams, descriptors, simpleDescriptors, motifModel, aclust, motifModelSet, changeClusterFormat, read.sequences, write.sequences, write.fasta, read.fasta)
importFrom("utils", data)
importFrom("graphics", plot)
importFrom("stats", dist, kmeans, residuals, logLik, predict, BIC)
exportMethods(dist, plot, BIC, predict, logLik, print, residuals, rbind, classify, motifString, plotFits, plotPositions, plotStartingPosition)
S3method("rbind", Sequences)
S3method("print", MotifModel)
S3method("plot", MotifModelSet)

importFrom("methods", setClass, setGeneric, setMethod, representation, new)
exportClasses(Sequences, Descriptors, MetricParams, MotifModelSet, MotifModel)
export(default.MetricParams, descriptors, simpleDescriptors, motifModel, aclust, motifModelSet, changeClusterFormat, read.sequences, write.sequences, write.fasta, read.fasta)
importFrom("utils", data)
importFrom("graphics", plot)
importFrom("stats", dist, kmeans, residuals, logLik, predict, BIC)
exportMethods(dist, plot, BIC, predict, logLik, print, residuals, rbind, classify, motifString, plotFits, plotPositions, plotStartingPosition)
S3method("rbind", Sequences)
S3method("print", MotifModel)
S3method("plot", MotifModelSet)