Package: ASSET 2.25.0
Samsiddhi Bhattacharjee
ASSET: An R package for subset-based association analysis of heterogeneous traits and subtypes
An R package for subset-based analysis of heterogeneous traits and disease subtypes. The package allows the user to search through all possible subsets of z-scores to identify the subset of traits giving the best meta-analyzed z-score. Further, it returns a p-value adjusting for the multiple-testing involved in the search. It also allows for searching for the best combination of disease subtypes associated with each variant.
Authors:
ASSET_2.25.0.tar.gz
ASSET_2.25.0.zip(r-4.5)ASSET_2.25.0.zip(r-4.4)ASSET_2.25.0.zip(r-4.3)
ASSET_2.25.0.tgz(r-4.4-any)ASSET_2.25.0.tgz(r-4.3-any)
ASSET_2.25.0.tar.gz(r-4.5-noble)ASSET_2.25.0.tar.gz(r-4.4-noble)
ASSET_2.25.0.tgz(r-4.4-emscripten)ASSET_2.25.0.tgz(r-4.3-emscripten)
ASSET.pdf |ASSET.html✨
ASSET/json (API)
NEWS
| # Install 'ASSET' in R: |
| install.packages('ASSET', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- N00 - Data for the h.traits example
- N10 - Data for the h.traits example
- N11 - Data for the h.traits example
- Neff - Data for the fast_asset example
- SE - Data for the fast_asset example
- SNP - Data for the fast_asset example
- betahat - Data for the fast_asset example
- data - Data for the h.traits example
- data - Data for the h.traits example
- ldscintmat - Data for the fast_asset example
- traits - Data for the fast_asset example
On BioConductor:ASSET-2.25.0(bioc 3.21)ASSET-2.24.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
statisticalmethodsnpgenomewideassociationmultiplecomparison
Last updated 2 months agofrom:081f9f716e. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 29 2024 |
| R-4.5-win | NOTE | Nov 29 2024 |
| R-4.5-linux | NOTE | Nov 29 2024 |
| R-4.4-win | NOTE | Nov 29 2024 |
| R-4.4-mac | NOTE | Nov 29 2024 |
| R-4.3-win | NOTE | Nov 29 2024 |
| R-4.3-mac | NOTE | Nov 29 2024 |
Exports:create_blocksfast_asseth.forestPloth.summaryh.traitsh.typesp.dlmz.max
Dependencies:cliexpmfansigenericsgluelatticelifecyclemagrittrMASSMatrixmsmmvtnormpillarpkgconfigrlangrmetasurvivaltibbleutf8vctrs
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Association analysis for SubSETs | ASSET |
| Create blocks from correlation matrix | create_blocks |
| Data for the fast_asset example | betahat ex_fast_asset ldscintmat Neff SE SNP traits |
| Data for the h.traits example | data ex_trait N00 N10 N11 |
| Data for the h.types example | ex_types |
| Fast ASSET using pre-screening | fast_asset |
| Forest plot for meta-analysis of heterogenerous traits or types. | h.forestPlot |
| Summary results from subset-search. | h.summary |
| Heterogeneous traits or studies | h.traits |
| Heterogeneous Subtype analysis | h.types |
| Discrete Local Maxima approximate p-value. | p.dlm |
| Z-score Maximization | z.max |