Package: mirIntegrator 1.35.0
Diana Diaz
mirIntegrator: Integrating microRNA expression into signaling pathways for pathway analysis
Tools for augmenting signaling pathways to perform pathway analysis of microRNA and mRNA expression levels.
Authors:
mirIntegrator_1.35.0.tar.gz
mirIntegrator_1.35.0.zip(r-4.5)mirIntegrator_1.35.0.zip(r-4.4)mirIntegrator_1.35.0.zip(r-4.3)
mirIntegrator_1.35.0.tgz(r-4.4-any)mirIntegrator_1.35.0.tgz(r-4.3-any)
mirIntegrator_1.35.0.tar.gz(r-4.5-noble)mirIntegrator_1.35.0.tar.gz(r-4.4-noble)
mirIntegrator_1.35.0.tgz(r-4.4-emscripten)mirIntegrator_1.35.0.tgz(r-4.3-emscripten)
mirIntegrator.pdf |mirIntegrator.html✨
mirIntegrator/json (API)
NEWS
| # Install 'mirIntegrator' in R: |
| install.packages('mirIntegrator', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/datad/mirintegrator/issues
- GSE43592_mRNA - Top table of preprocessed mRNA of GSE43592 dataset.
- GSE43592_miRNA - Top table of preprocessed miRNA of GSE43592 dataset.
- augmented_pathways - Signaling pathways augmented with miRNA.
- kegg_pathways - List of KEGG signaling pathways of human.
- mirTarBase - MicroRNA-target interactions in human.
- names_pathways - List of KEGG signaling pathways' names.
On BioConductor:mirIntegrator-1.35.0(bioc 3.20)mirIntegrator-1.34.0(bioc 3.19)
Last updated 2 months agofrom:64c6ce0c3e
Exports:integrate_mirpathways2pdfplot_augmented_pathwayplot_changesmallest_pathway
Dependencies:AnnotationDbiaskpassBiobaseBiocGenericsBiostringsbitbit64bitopsblobbootcachemclicolorspacecpp11crayoncurlDBIfansifarverfastmapGenomeInfoDbGenomeInfoDbDataggplot2gluegraphgtablehttrIRangesisobandjsonliteKEGGgraphKEGGRESTlabelinglatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopensslorg.Hs.eg.dbpillarpkgconfigplogrpngR6RColorBrewerRCurlRgraphvizrlangROntoToolsRSQLiteS4VectorsscalessystibbleUCSC.utilsutf8vctrsviridisLitewithrXMLXVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Signaling pathways augmented with miRNA. | augmented_pathways |
| Top table of preprocessed miRNA of GSE43592 dataset. | GSE43592_miRNA |
| Top table of preprocessed mRNA of GSE43592 dataset. | GSE43592_mRNA |
| Produce augmented pathways | integrate_mir |
| List of KEGG signaling pathways of human. | kegg_pathways |
| MicroRNA-target interactions in human. | mirTarBase |
| List of KEGG signaling pathways' names. | names_pathways |
| Export augmented pathways to pdf | pathways2pdf |
| Plotting of augmented pathway | plot_augmented_pathway |
| Plotting the change in pathways order | plot_change |
| Get the smallest pathway | smallest_pathway |
