Package: epiomics 1.1.0
Jesse Goodrich
epiomics: Analysis of Omics Data in Observational Studies
A collection of fast and flexible functions for analyzing omics data in observational studies. Multiple different approaches for integrating multiple environmental/genetic factors, omics data, and/or phenotype data are implemented. This includes functions for performing omics wide association studies with one or more variables of interest as the exposure or outcome; a function for performing a meet in the middle analysis for linking exposures, omics, and outcomes (as described by Chadeau-Hyam et al., (2010) <doi:10.3109/1354750X.2010.533285>); and a function for performing a mixtures analysis across all omics features using quantile-based g-Computation (as described by Keil et al., (2019) <doi:10.1289/EHP5838>).
Authors:
epiomics_1.1.0.tar.gz
epiomics_1.1.0.zip(r-4.5)epiomics_1.1.0.zip(r-4.4)epiomics_1.1.0.zip(r-4.3)
epiomics_1.1.0.tgz(r-4.4-any)epiomics_1.1.0.tgz(r-4.3-any)
epiomics_1.1.0.tar.gz(r-4.5-noble)epiomics_1.1.0.tar.gz(r-4.4-noble)
epiomics_1.1.0.tgz(r-4.4-emscripten)epiomics_1.1.0.tgz(r-4.3-emscripten)
epiomics.pdf |epiomics.html✨
epiomics/json (API)
NEWS
| # Install 'epiomics' in R: |
| install.packages('epiomics', repos = c('https://goodrich-lab.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/goodrich-lab/epiomics/issues
- example_data - Example data with multiple exposures, multiple outcomes,
Last updated 8 months agofrom:be15123a56. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 13 2024 |
| R-4.5-win | OK | Oct 13 2024 |
| R-4.5-linux | OK | Oct 13 2024 |
| R-4.4-win | OK | Oct 13 2024 |
| R-4.4-mac | OK | Oct 13 2024 |
| R-4.3-win | OK | Oct 13 2024 |
| R-4.3-mac | OK | Oct 13 2024 |
Exports:coef_plot_from_owasmeet_in_middleowasowas_clogitowas_qgcompvolcano_owas
Dependencies:abindarmbootclicodacodetoolscolorspacedata.tabledigestfansifarverfuturefuture.applygenericsggplot2ggrepelglobalsgluegridExtragtableisobandlabelinglatticelifecyclelistenvlme4magrittrMASSMatrixmgcvminqamunsellnlmenloptrnnetparallellypillarpkgconfigpsclqgcompR6RColorBrewerRcppRcppEigenrlangscalessurvivaltibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Create volcano plot using results from owas | coef_plot_from_owas |
| Example data with multiple exposures, multiple outcomes, | example_data |
| Perform 'omics wide association study | meet_in_middle |
| Perform 'omics wide association study | owas |
| Perform 'omics wide association study for matched case control studies | owas_clogit |
| Perform omics wide association study using qgcomp | owas_qgcomp |
| Create volcano plot using results from owas | volcano_owas |
