Package: MetaHD 0.1.6

MetaHD: A Multivariate Meta-Analysis Model for High-Dimensional Data
Performs multivariate meta-analysis for high-dimensional data to integrate and collectively analyse individual-level data from multiple studies, as well as to combine summary estimates. This approach accounts for correlation between outcomes, incorporates within- and between-study variability, handles missing values, and uses shrinkage estimation to accommodate high dimensionality. The 'MetaHD' R package provides access to our multivariate meta-analysis approach, along with a comprehensive suite of existing meta-analysis methods, including fixed-effects and random-effects models, Fisher's method, Stouffer's method, the weighted Z method, Lancaster's method, the weighted Fisher's method, and vote-counting approach. Visualisation tools are provided for interpreting and comparing results across methods, including Venn diagrams, UpSet plots, and ROC curves, heatmaps of pooled effect sizes and correlations among outcomes. A detailed vignette with example datasets and code for data preparation and analysis is available at <https://alyshadelivera.github.io/MetaHD_vignette/>.
Authors:
MetaHD_0.1.6.tar.gz
MetaHD_0.1.6.zip(r-4.7-x86_64)MetaHD_0.1.6.zip(r-4.7-arm64)MetaHD_0.1.6.zip(r-4.6-x86_64)MetaHD_0.1.6.zip(r-4.6-arm64)MetaHD_0.1.6.zip(r-4.5-x86_64)
MetaHD_0.1.6.tgz(r-4.6-x86_64)MetaHD_0.1.6.tgz(r-4.6-arm64)MetaHD_0.1.6.tgz(r-4.5-x86_64)MetaHD_0.1.6.tgz(r-4.5-arm64)
MetaHD_0.1.6.tar.gz(r-4.7-arm64)MetaHD_0.1.6.tar.gz(r-4.7-x86_64)MetaHD_0.1.6.tar.gz(r-4.6-arm64)MetaHD_0.1.6.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
MetaHD/json (API)
| # Install 'MetaHD' in R: |
| install.packages('MetaHD', repos = c('https://jayaminicl.r-universe.dev', 'https://cloud.r-project.org')) |
- realdata - An Individual-Level Metabolomics Dataset
- simdata.1 - Simulated Dataset 1 : With Complete Data
- simdata.2 - Simulated Dataset 2 : With Data Missing-At-Random
- simData.complete - Simulated Study-Level Complete Data
- simData.missing - Simulated Study-Level Data with Missing Values
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:f49e086e28. Checks:14 OK, 1 FAIL. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 235 | ||
| linux-devel-x86_64 | OK | 285 | ||
| source / vignettes | OK | 237 | ||
| linux-release-arm64 | OK | 267 | ||
| linux-release-x86_64 | OK | 319 | ||
| macos-release-arm64 | OK | 350 | ||
| macos-release-x86_64 | OK | 696 | ||
| macos-oldrel-arm64 | OK | 348 | ||
| macos-oldrel-x86_64 | OK | 696 | ||
| windows-devel-arm64 | OK | 569 | ||
| windows-devel-x86_64 | OK | 321 | ||
| windows-release-arm64 | OK | 538 | ||
| windows-release-x86_64 | OK | 256 | ||
| windows-oldrel-x86_64 | OK | 325 | ||
| wasm-release | FAIL | 162 |
Exports:estimateCorMatMetaHDMetaHDInputMetaHDpvalMetaHDResultplot_correlation_heatmapplot_dendrogramplot_effect_heatmap
Dependencies:BiobaseBiocGenericscirclizecliclueclustercodetoolscolorspaceComplexHeatmapcorpcorcpp11crayonDEoptimRdigestdoParalleldplyrdynamicTreeCutfarverforeachfuturefuture.applygenericsGetoptLongggplot2GlobalOptionsglobalsgluegridExtragtableIRangesisobanditeratorslabelinglatticelifecyclelistenvmagrittrMASSmathjaxrMatrixmatrixcalcMatrixModelsmatrixStatsmetadatmetaformetapmetapromnormtmultcompmulttestmutossmvtnormnlmenloptrnumDerivparallellypbapplypillarpkgconfigplotrixplyrpngpROCpurrrqqconfquantregR6rbibutilsRColorBrewerRcppRcppArmadilloRdpackrjsonrlangrobustbaseS4VectorsS7sandwichscalesshapesnSparseMstringistringrsurvivalTFisherTH.datatibbletidyrtidyselectUpSetRutf8vctrsviridisLitewithrzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Estimate the correlation matrix using observed treatment effects | estimateCorMat |
| A Multivariate Meta-Analysis Model for High-Dimensional Data | MetaHD |
| Summarise or print MetaHD results | MetaHD-outputs print.MetaHD summary.MetaHD |
| Creating Input Data for MetaHD When Individual-Level Data are Available | MetaHDInput |
| P-value Combination Methods for High-Dimensional Data | MetaHDpval |
| Create a 'MetaHD' result object | MetaHDResult |
| Plot a heatmap of correlations among outcomes | plot_correlation_heatmap |
| Plot dendrogram | plot_dendrogram |
| Plot a heatmap of pooled effect sizes across meta-analysis methods | plot_effect_heatmap |
| Plot 'MetaHD' results | plot.MetaHDResult |
| An Individual-Level Metabolomics Dataset | realdata |
| Simulated Dataset 1 : With Complete Data | simdata.1 |
| Simulated Dataset 2 : With Data Missing-At-Random | simdata.2 |
| Simulated Study-Level Complete Data | simData.complete |
| Simulated Study-Level Data with Missing Values | simData.missing |
