Package: ASSET 2.31.0
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_2.31.0.tar.gz
ASSET_2.31.0.zip(r-4.7)ASSET_2.31.0.zip(r-4.6)ASSET_2.31.0.zip(r-4.5)
ASSET_2.31.0.tgz(r-4.6-any)ASSET_2.31.0.tgz(r-4.5-any)
ASSET_2.31.0.tar.gz(r-4.7-any)ASSET_2.31.0.tar.gz(r-4.6-any)
ASSET_2.31.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
ASSET/json (API)
| # Install 'ASSET' in R: |
| install.packages('ASSET', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- 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
- 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
- traits - Data for the fast_asset example
On BioConductor:ASSET-2.31.0(bioc 3.24)ASSET-2.30.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
statisticalmethodsnpgenomewideassociationmultiplecomparison
Last updated from:aab96bdbb0. Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 148 | ||
| linux-devel-x86_64 | NOTE | 204 | ||
| source / vignettes | OK | 205 | ||
| linux-release-x86_64 | NOTE | 189 | ||
| macos-release-arm64 | NOTE | 106 | ||
| macos-oldrel-arm64 | NOTE | 99 | ||
| windows-devel | NOTE | 134 | ||
| windows-release | NOTE | 138 | ||
| windows-oldrel | NOTE | 129 | ||
| wasm-release | OK | 91 |
Exports:create_blocksfast_asseth.forestPloth.summaryh.traitsh.typesp.dlmz.max
Dependencies:cliexpmgenericsgluelatticelifecyclemagrittrMASSMatrixmsmmvtnormpillarpkgconfigrlangrmetasurvivaltibbleutf8vctrs
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 |