RFLOMICS
This is thereleased version of RFLOMICS; for the devel version, seeRFLOMICS.
Interactive web application for Omics-data analysis
Bioconductor version: Release (3.22)
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.
Author: Nadia Bessoltane [aut, cre]
ORCID: 0000-0001-6931-2529, Delphine Charif [aut] ORCID: 0000-0002-1949-5969, Audrey Hulot [aut] ORCID: 0000-0002-9647-6470, Christine Paysant-Leroux [aut] ORCID: 0000-0003-2046-6492, Gwendal Cueff [aut]
Maintainer: Nadia Bessoltane <nadia.bessoltane at inrae.fr>
citation("RFLOMICS")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("RFLOMICS")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RFLOMICS")| RFLOMICS | HTML | R Script |
| RFLOMICS Command line | HTML | R Script |
| RFLOMICS input format | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression,Metabolomics,Proteomics,ShinyApps,Software,Transcriptomics |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (0.5 years) |
| License | Artistic-2.0 |
| 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,enrichplot,FactoMineR,ggpubr,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 |
| System Requirements | Python (>=3), numpy, pandas, h5py, scipy, argparse, sklearn, mofapy2 (>=0.7.1) |
| URL | https://github.com/RFLOMICS/RFLOMICS |
| Bug Reports | https://github.com/RFLOMICS/RFLOMICS/issues |
See More
| Suggests | testthat,shinytest2,BiocStyle,org.Hs.eg.db |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | RFLOMICS_1.2.0.tar.gz |
| Windows Binary (x86_64) | RFLOMICS_1.2.0.zip |
| macOS Binary (x86_64) | RFLOMICS_1.2.0.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/RFLOMICS |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RFLOMICS |
| Bioc Package Browser | https://code.bioconductor.org/browse/RFLOMICS/ |
| Package Short Url | https://bioconductor.org/packages/RFLOMICS/ |
| Package Downloads Report | Download Stats |