Package: IMIX 1.1.5
IMIX: Gaussian Mixture Model for Multi-Omics Data Integration
A multivariate Gaussian mixture model framework to integrate multiple types of genomic data and allow modeling of inter-data-type correlations for association analysis. 'IMIX' can be implemented to test whether a disease is associated with genes in multiple genomic data types, such as DNA methylation, copy number variation, gene expression, etc. It can also study the integration of multiple pathways. 'IMIX' uses the summary statistics of association test outputs and conduct integration analysis for two or three types of genomics data. 'IMIX' features statistically-principled model selection, global FDR control and computational efficiency. Details are described in Ziqiao Wang and Peng Wei (2020) <doi:10.1093/bioinformatics/btaa1001>.
Authors:
IMIX_1.1.5.tar.gz
IMIX_1.1.5.zip(r-4.5)IMIX_1.1.5.zip(r-4.4)IMIX_1.1.5.zip(r-4.3)
IMIX_1.1.5.tgz(r-4.4-any)IMIX_1.1.5.tgz(r-4.3-any)
IMIX_1.1.5.tar.gz(r-4.5-noble)IMIX_1.1.5.tar.gz(r-4.4-noble)
IMIX_1.1.5.tgz(r-4.4-emscripten)IMIX_1.1.5.tgz(r-4.3-emscripten)
IMIX.pdf |IMIX.html✨
IMIX/json (API)
| # Install 'IMIX' in R: |
| install.packages('IMIX', repos = c('https://ziqiaow.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ziqiaow/imix/issues
- data_p - P value matrix of two data types
Last updated 2 years agofrom:ec276b2944. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 09 2024 |
| R-4.5-win | WARNING | Sep 09 2024 |
| R-4.5-linux | WARNING | Sep 09 2024 |
| R-4.4-win | WARNING | Sep 09 2024 |
| R-4.4-mac | WARNING | Sep 09 2024 |
| R-4.3-win | WARNING | Sep 09 2024 |
| R-4.3-mac | WARNING | Sep 09 2024 |
Exports:FDR_control_adaptiveFDR_control_adaptive_imixIMIXIMIX_corIMIX_cor_restrictIMIX_cor_twostepIMIX_indmodel_selectionmodel_selection_componentplot_component
Dependencies:askpassbase64encbslibcachemclicolorspacecpp11crayoncrosstalkcurldata.tabledigestdplyrevaluatefansifarverfastmapfontawesomefsgenericsggplot2gluegtablehighrhtmltoolshtmlwidgetshttrisobandjquerylibjsonlitekernlabknitrlabelinglaterlatticelazyevallifecyclemagrittrMASSMatrixmclustmemoisemgcvmimemixtoolsmunsellmvtnormnlmeopensslpillarpkgconfigplotlypromisespurrrR6rappdirsRColorBrewerRcpprlangrmarkdownsassscalessegmentedstringistringrsurvivalsystibbletidyrtidyselecttinytexutf8vctrsviridisLitewithrxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| P value matrix of two data types | data_p |
| The Adaptive Procedure for Across-Data-Type FDR Control | FDR_control_adaptive |
| The Adaptive Procedure for Across-Data-Type FDR Control for IMIX Output | FDR_control_adaptive_imix |
| IMIX | IMIX |
| IMIX-Cor | IMIX_cor |
| IMIX-Cor-Restrict | IMIX_cor_restrict |
| IMIX-Cor-Twostep | IMIX_cor_twostep |
| IMIX-ind | IMIX_ind |
| Model Selection | model_selection |
| Component Selection | model_selection_component |
| Plot the AIC or BIC Values for Model Selection | plot_component |
