fdrtool
Estimates both tail area-based false discovery rates (Fdr) as well as local false discovery rates (fdr) for a variety of null models (p-values, z-scores, correlation coefficients, t-scores). The proportion of null values and the parameters of the null distribution are adaptively estimated from the data. In addition, the package contains functions for non-parametric density estimation (Grenander estimator), for monotone regression (isotonic regression and antitonic regression with weights), for computing the greatest convex minorant (GCM) and the least concave majorant (LCM), for the half-normal and correlation distributions, and for computing empirical higher criticism (HC) scores and the corresponding decision threshold.
- ggisotonic
- TBEST
- The Generalized Ridge Estimator of the Inverse Covariance Matrix
- DiffCorr
- MixTwice
- GeneNet
- NetworkToolbox
- bayesbr
- ndtv
- pava
- Ridge estimation of the VAR(1) model and its time series chain graph from multivariate time-course omics data
- Bayes shrinkage estimation for high-dimensional VAR models with scale mixture of normal distributions for noise
- carSurv
- Replicability analysis for genome-wide association studies
- DNLC
- Periodically correlated modeling by means of the periodograms asymptotic distributions
- A new method to detect periodically correlated structure
- Gene regulatory networks. Methods and protocols
- sda
- mixfdr
- PROXSCAL
- sna
- GeneNet
- Intcox
- meboot
- Empirical priors and posterior concentration rates for a monotone density
- someMTP
- Mutoss
- partsm
- A graphical model method for integrating multiple sources of genome-scale data
- scout
- TikzDevice
- Monotone false discovery rate
- SVDLIBC
- qgraph
- SinIW
- TanB
- Online tensor methods for learning latent variable models
- A nonparametric empirical Bayes framework for large-scale multiple testing
- HAPGEN2
- ragt2ridges
- UStat
- qvalue
- kedd
- SurvStat@RKI
- Iso
- structSSI
- st
- OrdMonReg
- cir
- monreg
- clime
- rags2ridges
- Testing the disjunction hypothesis using Voronoi diagrams with applications to genetics
- ERP
- longitudinal
- Floating prioritized subset analysis: A powerful method to detect differentially expressed genes
- Adaptive filtering increases power to detect differentially expressed genes
- SimSeq
- scientific article; zbMATH DE number 6860845 (Why is no real title available?)
- kerfdr
- Pinnacle
- Statistical analysis of network data with R
- Bayesian hierarchical models for linear networks
- Statistical analysis of network data with R
- nlnet
- U-statistics with conditional kernels for incomplete data models
- qch
- UpSetR
- igraphdata
- Large-scale signal detection: a unified perspective
- Skggm
- NPHazardRate
- RAVE
- survML
- vaccine
- MonotoneHazardRatio
- SOHPIE
- admix
- Automated analysis of quantitative image data using isomorphic functional mixed models, with application to proteomics data
- New estimators of the Pickands dependence function and a test for extreme-value dependence
- idiolect
- LorMe
- fitdistcp
- mitey
- asm
- beam
- GeneCycle
- SMAHP
- iclogcondist
- hdthreshold
- EGRNi
- Inference after checking multiple Bayesian models for data conflict and applications to mitigating the influence of rejected priors
- rnmamod
- HDMT
- medScan
- Partition clustering of high dimensional low sample size data based on \(p\)-values
- An empirical Bayes mixture method for effect size and false discovery rate estimation
- Feature selection in omics prediction problems using cat scores and false nondiscovery rate control
- InvStablePrior
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