Package: bmass 1.0.3
bmass: Bayesian Multivariate Analysis of Summary Statistics
Multivariate tool for analyzing genome-wide association study results in the form of univariate summary statistics. The goal of 'bmass' is to comprehensively test all possible multivariate models given the phenotypes and datasets provided. Multivariate models are determined by assigning each phenotype to being either Unassociated (U), Directly associated (D) or Indirectly associated (I) with the genetic variant of interest. Test results for each model are presented in the form of Bayes factors, thereby allowing direct comparisons between models. The underlying framework implemented here is based on the modeling developed in "A Unified Framework for Association Analysis with Multiple Related Phenotypes", M. Stephens (2013) <doi:10.1371/journal.pone.0065245>.
Authors:
bmass_1.0.3.tar.gz
bmass_1.0.3.zip(r-4.5)bmass_1.0.3.zip(r-4.4)bmass_1.0.3.zip(r-4.3)
bmass_1.0.3.tgz(r-4.4-any)bmass_1.0.3.tgz(r-4.3-any)
bmass_1.0.3.tar.gz(r-4.5-noble)bmass_1.0.3.tar.gz(r-4.4-noble)
bmass_1.0.3.tgz(r-4.4-emscripten)bmass_1.0.3.tgz(r-4.3-emscripten)
bmass.pdf |bmass.html✨
bmass/json (API)
NEWS
# Install 'bmass' in R: |
install.packages('bmass', repos = c('https://mturchin20.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mturchin20/bmass/issues
- GlobalLipids2013.GWASsnps - GlobalLipids2013 GWAS SNPs
- bmass_SimulatedData1 - Bmass Simulated Dataset 1
- bmass_SimulatedData2 - Bmass Simulated Dataset 2
- bmass_SimulatedSigSNPs - Bmass Simulated GWAS SNPs
- bmass_TestData1 - Bmass Test Dataset 1
- bmass_TestData2 - Bmass Test Dataset 2
- bmass_TestSigSNPs - Bmass Test GWAS SNPs
Last updated 4 years agofrom:3721784885. Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 31 2024 |
R-4.5-win | OK | Oct 31 2024 |
R-4.5-linux | OK | Oct 31 2024 |
R-4.4-win | OK | Oct 31 2024 |
R-4.4-mac | OK | Oct 31 2024 |
R-4.3-win | OK | Oct 31 2024 |
R-4.3-mac | OK | Oct 31 2024 |
Exports:bmassGetMarginalPosteriorsGetModelPriorMatrixGetTopModelsPerSNPViaPosteriors
Dependencies:
bmass Introduction -- Real Data
Rendered frombmassIntro.2.RealData.Rmd
usingknitr::rmarkdown
on Oct 31 2024.Last update: 2019-05-17
Started: 2019-03-14
bmass Introduction -- Simulated Data
Rendered frombmassIntro.1.SimulatedData.Rmd
usingknitr::rmarkdown
on Oct 31 2024.Last update: 2019-05-17
Started: 2019-03-14
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Bayesian multivariate analysis of summary statistics ('bmass') | bmass |
bmass Simulated Dataset 1 | bmass_SimulatedData1 |
bmass Simulated Dataset 2 | bmass_SimulatedData2 |
bmass Simulated GWAS SNPs | bmass_SimulatedSigSNPs |
bmass Test Dataset 1 | bmass_TestData1 |
bmass Test Dataset 2 | bmass_TestData2 |
bmass Test GWAS SNPs | bmass_TestSigSNPs |
Get Marginal {*U*,*D*,*I*} Posteriors | GetMarginalPosteriors |
Get Model Prior Matrix | GetModelPriorMatrix |
Get Top Multivariate Models | GetTopModelsPerSNPViaPosteriors |
GlobalLipids2013 GWAS SNPs | GlobalLipids2013.GWASsnps |