RFLOMICS
Interactive web application for Omics-data analysis
Bioconductor version: 3.24 · Package version: 1.5.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
R-package with shiny interface, provides a framework for the analysis of transcriptomics, proteomics and/or metabolomics data. The interface offers a guided experience for the user, from the definition of the experimental design to the integration of several omics table together. A report can be generated with all settings and analysis results.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RFLOMICS")Details
| Maintainer | Nadia Bessoltane <nadia.bessoltane@inrae.fr> |
| Author | Nadia Bessoltane [aut, cre] (ORCID: <https://orcid.org/0000-0001-6931-2529>), Delphine Charif [aut] (ORCID: <https://orcid.org/0000-0002-1949-5969>), Audrey Hulot [aut] (ORCID: <https://orcid.org/0000-0002-9647-6470>), Christine Paysant-Leroux [aut] (ORCID: <https://orcid.org/0000-0003-2046-6492>), Gwendal Cueff [aut] |
| License | Artistic-2.0 |
| URL | https://github.com/RFLOMICS/RFLOMICS |
| Bug Reports | https://github.com/RFLOMICS/RFLOMICS/issues |
| System Requirements | Python (>=3), numpy, pandas, h5py, scipy, argparse, sklearn, mofapy2 (>=0.7.1) |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, Metabolomics, Proteomics, ShinyApps, Software, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/RFLOMICS/ |
Citation
From within R, enter citation("RFLOMICS"):
Nadia Bessoltane, Delphine Charif, Audrey Hulot, Christine Paysant-Leroux, Gwendal Cueff. RFLOMICS: Interactive web application for Omics-data analysis. doi:10.18129/B9.bioc.RFLOMICS, R package version 1.5.0, https://bioconductor.org/packages/RFLOMICS.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | RFLOMICS_1.5.0.tar.gz |
| Windows binary (x86_64) | RFLOMICS_1.5.0.zip |
| macOS binary (arm64) | RFLOMICS_1.5.0.tgz |
| macOS binary (x86_64) | RFLOMICS_1.5.0.tgz |
Dependencies
Depends: R (>= 4.4.0), SummarizedExperiment, MultiAssayExperiment, shinyBS, dplyr, ggplot2, htmltools, knitr, coseq
Imports: vroom, org.At.tair.db, AnnotationDbi, clusterProfiler, ComplexHeatmap, data.table, DT, edgeR, FactoMineR, ggpubr, ggnetwork, ggrepel, grDevices, grid, httr, limma, magrittr, methods, mixOmics, MOFA2, plotly, purrr, RColorBrewer, reshape2, reticulate, rmarkdown, S4Vectors, shiny, shinydashboard, shinyWidgets, stats, stringr, tidyr, tibble, tidyselect, UpSetR
Suggests: testthat, shinytest2, BiocStyle, org.Hs.eg.db