
glasso
 Referenced in 456 articles
[sw07432]
 build a path of models for different values of the tuning parameter. Convergence of glasso ... might not be the inverse of the estimated covariance, and occasionally it fails to converge ... this dual, the target of estimation is Σ, the covariance matrix, rather than the precision ... matrix Θ. We propose similar primal algorithms pglasso and dpglasso, that also operate...

AdaPT
 Referenced in 7 articles
[sw30027]
 call AdaPT, which adaptively estimates a Bayes optimal (p)value rejection threshold and controls ... rejection threshold and observes partially censored (p)values, estimates the false discovery proportion below...

FAMT
 Referenced in 32 articles
[sw11123]
 multiple tests. The model parameters are estimated thanks to an EM algorithm. Adjusted tests statistics ... derived, as well as the associated pvalues. The proportion of true null hypotheses ... controlling the false discovery rate) is also estimated from the FAMT model. Graphics are proposed...

TwoCop
 Referenced in 59 articles
[sw12359]
 test of equality between two dependence structures estimated through empirical copulas. We provide inference ... limit theorem is used for calculating pvalues of the Cramérvon Mises test statistic...

fdrtool
 Referenced in 30 articles
[sw08196]
 Higher Criticism. This package allows to estimate both tail areabased false discovery rates ... models (pvalues, zscores, correlation coefficients, tscores). The proportion of null values ... parameters of the null distribution are adaptively estimated from the data. In addition, the package...

qvalue
 Referenced in 8 articles
[sw22383]
 value estimation for false discovery rate control. This package takes a list of pvalues ... hypotheses and estimates their qvalues and local FDR values. The qvalue ... true given the test’s pvalue. Various plots are automatically generated, allowing ... shown on the conservative accuracy of the estimated qvalues from this software. The software...

exactLoglinTest
 Referenced in 3 articles
[sw25926]
 Monte Carlo algorithm is proposed to estimate P values from the resulting conditional distribution...

SimPed
 Referenced in 5 articles
[sw15080]
 intermarker linkage disequilibrium and estimating empirical p values for linkage and familybased association studies...

ftnonpar
 Referenced in 67 articles
[sw11128]
 nonparametric regression and density estimation, described in Davies, P. L. and Kovac, A. (2001) Local ... Annals of Statistics. 29. p165 Davies, P. L. and Kovac, A. (2004) Densities, Spectral ... Smooth functions and local extreme values. Computational Statistics and Data Analysis (to appear) D”umbgen...

NEEP
 Referenced in 1 article
[sw36005]
 NEEP: null empirically estimated pvalues for highthroughput molecular survival analysis. Null Empirically Estimated ... objects will be skewed. To estimate the correct pvalues, we sample 1M (or user ... provided clinical data. Then, pvalues are estimated empirically and adjusted using the BenjaminiHochberg...

KScorrect
 Referenced in 2 articles
[sw36708]
 estimated by sample statistics. Pvalues are estimated by simulation. Can be used with...

twilight
 Referenced in 9 articles
[sw06103]
 permutation based pvalues. Function twilight performs a stochastic downhill search to estimate local false...

wtest
 Referenced in 1 article
[sw17087]
 package provides fast and accurate pvalue estimation of genetic markers, as well as diagnostic...

HMMcopula
 Referenced in 1 article
[sw32774]
 transform and parametric bootstrap to estimate the pvalue. The estimation of the copula parameters...

pipeGS
 Referenced in 0 articles
[sw17780]
 package pipeGS. Permutation pValue Estimation for Gene Set Tests. Code for various permutation ... pvalues estimation methods for gene set test. The description of corresponding methods ... Efficient permutation Pvalue estimation for gene set tests” . ... also corresponds to the paper ”Permutation pvalue approximation via generalized Stolarsky invariance”

rfPermute
 Referenced in 1 article
[sw41426]
 package rfPermute: Estimate Permutation pValues for Random Forest Importance Metrics. Estimate significance of importance ... metrics for each predictor variable and pvalue of observed. Provides summary and visualization functions...

iZID
 Referenced in 1 article
[sw32719]
 Distributions. Computes bootstrapped Monte Carlo estimate of p value of KolmogorovSmirnov (KS) test ... hurdle models and obtain maximum likelihood estimate of unknown parameters in these models...

FIMO
 Referenced in 6 articles
[sw17298]
 Pvalue and then applies false discovery rate analysis to estimate a qvalue...

EigenPrism
 Referenced in 13 articles
[sw21947]
 error of a high dimensional (p>n) regression estimator, the linear regression noise level ... signaltonoise ratio of a continuousvalued trait (related to the heritability). All three...

Norm 2.03
 Referenced in 1 article
[sw08149]
 datum is replaced by m>1 simulated values. The resulting m versions of the complete ... produce inferential statements (e.g. interval estimates or pvalues) that incorporate missingdata uncertainty...