Package: GGPA 1.19.0
Dongjun Chung
GGPA: graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architecture
Genome-wide association studies (GWAS) is a widely used tool for identification of genetic variants associated with phenotypes and diseases, though complex diseases featuring many genetic variants with small effects present difficulties for traditional these studies. By leveraging pleiotropy, the statistical power of a single GWAS can be increased. This package provides functions for fitting graph-GPA, a statistical framework to prioritize GWAS results by integrating pleiotropy. 'GGPA' package provides user-friendly interface to fit graph-GPA models, implement association mapping, and generate a phenotype graph.
Authors:
GGPA_1.19.0.tar.gz
GGPA_1.19.0.zip(r-4.5)GGPA_1.19.0.zip(r-4.4)GGPA_1.19.0.zip(r-4.3)
GGPA_1.19.0.tgz(r-4.4-x86_64)GGPA_1.19.0.tgz(r-4.4-arm64)GGPA_1.19.0.tgz(r-4.3-x86_64)GGPA_1.19.0.tgz(r-4.3-arm64)
GGPA_1.19.0.tar.gz(r-4.5-noble)GGPA_1.19.0.tar.gz(r-4.4-noble)
GGPA_1.19.0.tgz(r-4.4-emscripten)GGPA_1.19.0.tgz(r-4.3-emscripten)
GGPA.pdf |GGPA.html✨
GGPA/json (API)
NEWS
| # Install 'GGPA' in R: |
| install.packages('GGPA', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/dongjunchung/ggpa/issues
- simulation - Simulation dataa for graph-GPA
On BioConductor:GGPA-1.19.0(bioc 3.21)GGPA-1.18.0(bioc 3.20)
softwarestatisticalmethodclassificationgenomewideassociationsnpgeneticsclusteringmultiplecomparisonpreprocessinggeneexpressiondifferentialexpressionopenblascpp
Last updated 2 months agofrom:872cd059fe. Checks:OK: 1 NOTE: 4 WARNING: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 21 2024 |
| R-4.5-win-x86_64 | NOTE | Dec 21 2024 |
| R-4.5-linux-x86_64 | NOTE | Dec 21 2024 |
| R-4.4-win-x86_64 | NOTE | Dec 21 2024 |
| R-4.4-mac-x86_64 | WARNING | Dec 21 2024 |
| R-4.4-mac-aarch64 | WARNING | Dec 21 2024 |
| R-4.3-win-x86_64 | NOTE | Dec 21 2024 |
| R-4.3-mac-x86_64 | WARNING | Dec 21 2024 |
| R-4.3-mac-aarch64 | WARNING | Dec 21 2024 |
Exports:assocestimatesfdrGGPAplotshow
Dependencies:clicodacolorspacecpp11crayondplyrfansifarverforcatsgenericsGGallyggplot2ggstatsgluegtablehmsisobandlabelinglatticelifecyclemagrittrMASSMatrixmatrixStatsmgcvmunsellnetworknlmepatchworkpillarpkgconfigplyrprettyunitsprogresspurrrR6RColorBrewerRcppRcppArmadillorlangscalessnastatnet.commonstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| graph-GPA | GGPA-package |
| Association mapping | assoc assoc,GGPA-method |
| Fit graph-GPA model | GGPA |
| Class "GGPA" | estimates estimates,GGPA-method fdr fdr,GGPA-method GGPA-class plot,GGPA,missing-method plot,GGPA-method show,GGPA-method |
| Simulation dataa for graph-GPA | simulation |
