SPIA
Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations
Bioconductor version: 3.23 · Package version: 2.64.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
This package implements the Signaling Pathway Impact Analysis (SPIA) which uses the information form a list of differentially expressed genes and their log fold changes together with signaling pathways topology, in order to identify the pathways most relevant to the condition under the study.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SPIA")Details
| Maintainer | Adi Laurentiu Tarca <atarca@med.wayne.edu> |
| Author | Adi Laurentiu Tarca <atarca@med.wayne.edu>, Purvesh Kathri <purvesh@cs.wayne.edu> and Sorin Draghici <sorin@wayne.edu> |
| License | file LICENSE |
| URL | http://bioinformatics.oxfordjournals.org/cgi/reprint/btn577v1 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | GraphAndNetwork, Microarray, Software |
| Package Short Url | https://bioconductor.org/packages/SPIA/ |
Citation
From within R, enter citation("SPIA"):
Adi Laurentiu Tarca, Purvesh Kathri and Sorin Draghici. SPIA: Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations. doi:10.18129/B9.bioc.SPIA, R package version 2.64.0, https://bioconductor.org/packages/SPIA.
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 | SPIA_2.64.0.tar.gz |
| Windows binary (x86_64) | SPIA_2.64.0.zip |
| macOS binary (arm64) | SPIA_2.64.0.tgz |
| macOS binary (x86_64) | SPIA_2.64.0.tgz |
Dependencies
Depends: R (>= 2.14.0), graphics, KEGGgraph
Imports: graphics
Suggests: graph, Rgraphviz, hgu133plus2.db