Package: HybridMTest 1.51.0
Demba Fofana
HybridMTest: Hybrid Multiple Testing
Performs hybrid multiple testing that incorporates method selection and assumption evaluations into the analysis using empirical Bayes probability (EBP) estimates obtained by Grenander density estimation. For instance, for 3-group comparison analysis, Hybrid Multiple testing considers EBPs as weighted EBPs between F-test and H-test with EBPs from Shapiro Wilk test of normality as weigth. Instead of just using EBPs from F-test only or using H-test only, this methodology combines both types of EBPs through EBPs from Shapiro Wilk test of normality. This methodology uses then the law of total EBPs.
Authors:
HybridMTest_1.51.0.tar.gz
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HybridMTest.pdf |HybridMTest.html✨
HybridMTest/json (API)
| # Install 'HybridMTest' in R: |
| install.packages('HybridMTest', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- GroupComp.data - Sample ExpressionSet of GroupComp.data
- correlation.data - Sample ExpressionSet object of correlation.data
On BioConductor:HybridMTest-1.51.0(bioc 3.21)HybridMTest-1.50.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
geneexpressiongeneticsmicroarray
Last updated 4 months agofrom:a4de83e282. Checks:1 OK, 7 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Feb 03 2025 |
| R-4.5-win | NOTE | Feb 03 2025 |
| R-4.5-mac | NOTE | Feb 03 2025 |
| R-4.5-linux | NOTE | Feb 03 2025 |
| R-4.4-win | NOTE | Feb 03 2025 |
| R-4.4-mac | NOTE | Feb 03 2025 |
| R-4.3-win | NOTE | Feb 03 2025 |
| R-4.3-mac | NOTE | Feb 03 2025 |
Exports:grenander.ebphybrid.testrow.kgrp.shapirorow.kruskal.wallisrow.oneway.anovarow.pearsonrow.slr.shapirorow.spearman
Dependencies:BiobaseBiocGenericsfdrtoolgenericslatticeMASSMatrixsurvival
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| A powerful tool in gene expression hypothesis testing. | HybridMTest-package |
| Sample ExpressionSet object of correlation.data | correlation.data |
| Grenander EBP. | grenander.ebp |
| Sample ExpressionSet of GroupComp.data | GroupComp.data |
| Hybrid Multiple Testing of Gene Expression Data | hybrid.test |
| Shapiro Wilk test of normality. | row.kgrp.shapiro |
| Apply the Kruskal-Wallis test many times | row.kruskal.wallis |
| Perform one-way ANOVA for many variables. | row.oneway.anova |
| Compute the Pearson correlation of a variable x with many variables in a matrix Y | row.pearson |
| Test normality of residuals for many variables. | row.slr.shapiro |
| Compute Spearmans rank-based correlation of many variables with a variable x | row.spearman |