Package: sumSome 1.1.1
Anna Vesely
sumSome: True Discovery Guarantee by Sum-Based Tests
It allows to quickly perform closed testing by sum-based global tests, and construct lower confidence bounds for the TDP, simultaneously over all subsets of hypotheses. As main features, it produces permutation-based simultaneous lower confidence bounds for the proportion of active voxels in clusters for fMRI data, and for the proportion of differentially expressed genes in pathways for gene expression data. Details may be found in Vesely at al. (2021) <arxiv:2102.11759> and Tian at al. (2021) <arxiv:2102.11253>.
Authors:
sumSome_1.1.1.tar.gz
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sumSome.pdf |sumSome.html✨
sumSome/json (API)
NEWS
| # Install 'sumSome' in R: |
| install.packages('sumSome', repos = c('https://annavesely.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/annavesely/sumsome/issues
Last updated 1 years agofrom:f11ef3b608. Checks:OK: 1 NOTE: 8. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 23 2024 |
| R-4.5-win-x86_64 | NOTE | Nov 23 2024 |
| R-4.5-linux-x86_64 | NOTE | Nov 23 2024 |
| R-4.4-win-x86_64 | NOTE | Nov 23 2024 |
| R-4.4-mac-x86_64 | NOTE | Nov 23 2024 |
| R-4.4-mac-aarch64 | NOTE | Nov 23 2024 |
| R-4.3-win-x86_64 | NOTE | Nov 23 2024 |
| R-4.3-mac-x86_64 | NOTE | Nov 23 2024 |
| R-4.3-mac-aarch64 | NOTE | Nov 23 2024 |
Exports:brainAnalysisbrainClustersbrainPvalsbrainScoresdiscoveriesfdpgeneAnalysisgenePvalsgeneScoressimDatasumPvalssumPvalsParsumStatssumStatsPartdp
Dependencies:ARIbrainFMStablehommelmatrixStatspARIplyrRcppRcppArmadilloRNifti
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| True Discovery Guarantee by Sum-Based Tests | sumSome-package sumSome |
| True Discovery Guarantee for Cluster Analysis of Brain Imaging Data | brainAnalysis |
| Suprathreshold Clusters for Brain Imaging | brainClusters |
| Permutation p-Values for Brain Imaging | brainPvals |
| Permutation t-Scores for Brain Imaging | brainScores |
| Confidence Bound for the Number of True Discoveries | discoveries discoveries.sumObj |
| Confidence Bound for the FDP | fdp fdp.sumObj |
| True Discovery Guarantee for Pathway Analysis of Gene Expression Data | geneAnalysis |
| Permutation p-Values for Gene Expression | genePvals |
| Permutation t-Scores for Gene Expression | geneScores |
| Simulating Matrix of Statistics | simData |
| True Discovery Guarantee for p-Value Combinations - Permutation | sumPvals |
| True Discovery Guarantee for p-Value Combinations - Parametric | sumPvalsPar |
| True Discovery Guarantee for Generic Statistics - Permutation | sumStats |
| True Discovery Guarantee for Generic Statistics - Parametric | sumStatsPar |
| Confidence Bound for the TDP | tdp tdp.sumObj |