Package: sumFREGAT 1.2.5
Nadezhda M. Belonogova
sumFREGAT: Fast Region-Based Association Tests on Summary Statistics
An adaptation of classical region/gene-based association analysis techniques to the use of summary statistics (P values and effect sizes) and correlations between genetic variants as input. It is a tool to perform the most popular and efficient gene-based tests using the results of genome-wide association (meta-)analyses without having the original genotypes and phenotypes at hand. See for details: Svishcheva et al (2019) Gene-based association tests using GWAS summary statistics. Bioinformatics. Belonogova et al (2022) SumSTAAR: A flexible framework for gene-based association studies using GWAS summary statistics. PLOS Comp Biol.
Authors:
sumFREGAT_1.2.5.tar.gz
sumFREGAT_1.2.5.tar.gz(r-4.5-noble)sumFREGAT_1.2.5.tar.gz(r-4.4-noble)
sumFREGAT_1.2.5.tgz(r-4.4-emscripten)sumFREGAT_1.2.5.tgz(r-4.3-emscripten)
sumFREGAT.pdf |sumFREGAT.html✨
sumFREGAT/json (API)
| # Install 'sumFREGAT' in R: |
| install.packages('sumFREGAT', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 years agofrom:f0e227c90a. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 01 2024 |
| R-4.5-linux-x86_64 | OK | Nov 01 2024 |
Exports:ACATACATOBTFLMminpPCAprep.score.filessimpleMSKATSKATOsumchisumSTAAR
Dependencies:BHGBJlatticeMatrixmvtnormRcppRcppEigenRSpectraseqminerSKATSPAtest
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| sumFREGAT: Fast REGional Association Tests on summary statistics | sumFREGAT-package |
| omnibus aggregated Cauchy association test | ACATO |
| Gene-based tests on summary statistics | ACAT BT FLM minp PCA simpleM SKAT SKATO sumchi |
| Prepare score files | prep.score.files |
| variant-Set Test for Association using Annotation infoRmation on summary statistics | sumSTAAR |