• 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 p-glasso and dp-glasso, 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 p-values. 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 p-values of the Cramér-von Mises test statistic...
  • fdrtool

  • Referenced in 30 articles [sw08196]
  • Higher Criticism. This package allows to estimate both tail area-based false discovery rates ... models (p-values, z-scores, correlation coefficients, t-scores). 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 p-values ... hypotheses and estimates their q-values and local FDR values. The q-value ... true given the test’s p-value. Various plots are automatically generated, allowing ... shown on the conservative accuracy of the estimated q-values 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 family-based 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. p1-65 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 p-values for high-throughput molecular survival analysis. Null Empirically Estimated ... objects will be skewed. To estimate the correct p-values, we sample 1M (or user ... provided clinical data. Then, p-values are estimated empirically and adjusted using the Benjamini-Hochberg...
  • KScorrect

  • Referenced in 2 articles [sw36708]
  • estimated by sample statistics. P-values are estimated by simulation. Can be used with...
  • twilight

  • Referenced in 9 articles [sw06103]
  • permutation based p-values. Function twilight performs a stochastic downhill search to estimate local false...
  • wtest

  • Referenced in 1 article [sw17087]
  • package provides fast and accurate p-value estimation of genetic markers, as well as diagnostic...
  • HMMcopula

  • Referenced in 1 article [sw32774]
  • transform and parametric bootstrap to estimate the p-value. The estimation of the copula parameters...
  • pipeGS

  • Referenced in 0 articles [sw17780]
  • package pipeGS. Permutation p-Value Estimation for Gene Set Tests. Code for various permutation ... p-values estimation methods for gene set test. The description of corresponding methods ... Efficient permutation P-value estimation for gene set tests” . ... also corresponds to the paper ”Permutation p-value approximation via generalized Stolarsky invariance”
  • rfPermute

  • Referenced in 1 article [sw41426]
  • package rfPermute: Estimate Permutation p-Values for Random Forest Importance Metrics. Estimate significance of importance ... metrics for each predictor variable and p-value of observed. Provides summary and visualization functions...
  • iZID

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

  • Referenced in 6 articles [sw17298]
  • P-value and then applies false discovery rate analysis to estimate a q-value...
  • EigenPrism

  • Referenced in 13 articles [sw21947]
  • error of a high dimensional (p>n) regression estimator, the linear regression noise level ... signal-to-noise ratio of a continuous-valued 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 p-values) that incorporate missing-data uncertainty...