ssa: Simultaneous Signal Analysis

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Procedures for analyzing simultaneous signals, e.g., features that are simultaneously significant in two different studies. Includes methods for detecting simultaneous signals, for identifying them under false discovery rate control, and for leveraging them to improve prediction.

Author
Dave Zhao [aut, cre]
Date of publication
2016-07-24 01:20:22
Maintainer
Dave Zhao <sdzhao@illinois.edu>
License
GPL-3
Version
1.2.1

View on CRAN

Man pages

bi.npmle
Bivariate NPMLE
expit
Expit function
fsdr
False simultaneous discovery rate control
fsdr_all
False simultaneous discovery rate control - report all...
ldd
Latent dependency detection
logit
Logit function
maxtest
Max test for detecting simultaneous signals
neb.predict
Nonparametric empirical Bayes classifier without annotations;...
neb.train
Nonparametric empirical Bayes classifier without annotations;...
nebula.bin.predict
Nonparametric empirical Bayes classifier using latent...
nebula.bin.train
Nonparametric empirical Bayes classifier using latent...
nebula.chisq.bin.predict
Nonparametric empirical Bayes classifier using latent...
nebula.chisq.bin.train
Nonparametric empirical Bayes classifier using latent...
nebula.chisq.predict
Nonparametric empirical Bayes classifier using latent...
nebula.chisq.train
Nonparametric empirical Bayes classifier using latent...
nebula.predict
Nonparametric empirical Bayes classifier using latent...
nebula.train
Nonparametric empirical Bayes classifier using latent...
prs.predict
Polygenic risk score; prediction
prs.predict.cv
Polygenic risk score; prediction for classifier trained with...
prs.train
Polygenic risk score (given only allele frequencies);...
prs.train.cv
Polygenic risk score (given only allele frequencies);...
tri.npmle
Trivariate NPMLE
uni.npmle
Univariate NPMLE

Files in this package

ssa
ssa/src
ssa/src/fsdr.c
ssa/src/ldd.c
ssa/NAMESPACE
ssa/R
ssa/R/npmle.R
ssa/R/ldd.R
ssa/R/nebula.R
ssa/R/fsdr.R
ssa/R/maxtest.R
ssa/R/prs.R
ssa/R/neb.R
ssa/R/link_fxns.R
ssa/MD5
ssa/DESCRIPTION
ssa/man
ssa/man/nebula.chisq.train.Rd
ssa/man/prs.predict.Rd
ssa/man/nebula.bin.train.Rd
ssa/man/neb.train.Rd
ssa/man/maxtest.Rd
ssa/man/prs.train.cv.Rd
ssa/man/prs.predict.cv.Rd
ssa/man/ldd.Rd
ssa/man/fsdr.Rd
ssa/man/prs.train.Rd
ssa/man/nebula.chisq.bin.train.Rd
ssa/man/tri.npmle.Rd
ssa/man/expit.Rd
ssa/man/logit.Rd
ssa/man/uni.npmle.Rd
ssa/man/bi.npmle.Rd
ssa/man/nebula.chisq.predict.Rd
ssa/man/fsdr_all.Rd
ssa/man/nebula.bin.predict.Rd
ssa/man/nebula.chisq.bin.predict.Rd
ssa/man/nebula.train.Rd
ssa/man/neb.predict.Rd
ssa/man/nebula.predict.Rd