Simultaneous Signal Analysis

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Documentation for package ‘ssa’ version 1.3.0

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bi.npmle Bivariate NPMLE
expit Expit function
ldd Latent dependency detection
logit Logit function
maxtest Max test for detecting simultaneous signals
neb.predict Nonparametric empirical Bayes classifier without annotations; prediction
neb.train Nonparametric empirical Bayes classifier without annotations; training
nebula.bin.predict Nonparametric empirical Bayes classifier using latent annotations: binary indicators; prediction
nebula.bin.train Nonparametric empirical Bayes classifier using latent annotations: binary indicators; training
nebula.chisq.bin.predict Nonparametric empirical Bayes classifier using latent annotations: chi-square test statistics and binary indicators; prediction
nebula.chisq.bin.train Nonparametric empirical Bayes classifier using latent annotations: chi-square test statistics and binary indicators; training
nebula.chisq.predict Nonparametric empirical Bayes classifier using latent annotations: chi-square test statistics; prediction
nebula.chisq.train Nonparametric empirical Bayes classifier using latent annotations: chi-square test statistics; training
nebula.predict Nonparametric empirical Bayes classifier using latent annotations: wrapper function; predict
nebula.train Nonparametric empirical Bayes classifier using latent annotations: wrapper function; training
nfsdr Nonparametric false simultaneous discovery rate control
nfsdr2 Nonparametric false simultaneous discovery rate control, two thresholds
nfsdr2_all Nonparametric false simultaneous discovery rate control, two thresholds - report all thresholds
prs.predict Polygenic risk score; prediction
prs.predict.cv Polygenic risk score; prediction for classifier trained with CV
prs.train Polygenic risk score (given only allele frequencies); training
prs.train.cv Polygenic risk score (given only allele frequencies); training with CV
tri.npmle Trivariate NPMLE
uni.npmle Univariate NPMLE