Introduction | Requirements for using miRNApath | Loading miRNA expression data | Filtering miRNA data for hits | Loading miRNA-gene associations | Loading gene-pathway associations | Running miRNA pathway enrichment | Exporting miRNA enrichment results | Displaying a heatmap summary
Package: miRNApath 1.73.0
James M. Ward
miRNApath: miRNApath: Pathway Enrichment for miRNA Expression Data
This package provides pathway enrichment techniques for miRNA expression data. Specifically, the set of methods handles the many-to-many relationship between miRNAs and the multiple genes they are predicted to target (and thus affect.) It also handles the gene-to-pathway relationships separately. Both steps are designed to preserve the additive effects of miRNAs on genes, many miRNAs affecting one gene, one miRNA affecting multiple genes, or many miRNAs affecting many genes.
Authors:
miRNApath_1.73.0.tar.gz
miRNApath_1.73.0.zip(r-4.7)miRNApath_1.73.0.zip(r-4.6)miRNApath_1.73.0.zip(r-4.5)
miRNApath_1.73.0.tgz(r-4.6-any)miRNApath_1.73.0.tgz(r-4.5-any)
miRNApath_1.73.0.tar.gz(r-4.7-any)miRNApath_1.73.0.tar.gz(r-4.6-any)
miRNApath_1.73.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
miRNApath/json (API)
| # Install 'miRNApath' in R: |
| install.packages('miRNApath', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- mirnaobj - Mirnaobj, an S4 object of class "mirnapath"
On BioConductor:miRNApath-1.73.0(bioc 3.24)miRNApath-1.72.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
annotationpathwaysdifferentialexpressionnetworkenrichmentmirna
Last updated from:dde663a3f5. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 187 | ||
| linux-devel-x86_64 | NOTE | 192 | ||
| source / vignettes | OK | 132 | ||
| linux-release-x86_64 | NOTE | 173 | ||
| macos-release-arm64 | NOTE | 88 | ||
| macos-oldrel-arm64 | NOTE | 74 | ||
| windows-devel | NOTE | 82 | ||
| windows-release | NOTE | 83 | ||
| windows-oldrel | NOTE | 76 | ||
| wasm-release | OK | 98 |
Exports:filtermirnapathloadmirnapathloadmirnapathwaysloadmirnatogenemirnaTablerunEnrichmentshow
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| miRNApath: Pathway Enrichment for miRNA Expression Data | miRNApath-package |
| Filter miRNApath data | filtermirnapath |
| Load miRNApath Data | loadmirnapath |
| Load gene to pathway associations for miRNApath | loadmirnapathways |
| Load miRNA to gene associations for miRNApath | loadmirnatogene |
| mirnaobj, an S4 object of class "mirnapath" | mirnaobj |
| S4 class mirnapath and its "show" method | mirnapath-class show,mirnapath-method |
| Create miRNA Enrichment Summary Table as data.frame | mirnaTable |
| Perform gene set enrichment analysis on a miRNApath object | runEnrichment |
