Package: SPIA 2.64.0

Adi Laurentiu Tarca

SPIA: Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations

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.

Authors:Adi Laurentiu Tarca <[email protected]>, Purvesh Kathri <[email protected]> and Sorin Draghici <[email protected]>

SPIA_2.64.0.tar.gz
SPIA_2.64.0.zip(r-4.7)SPIA_2.64.0.zip(r-4.6)SPIA_2.64.0.zip(r-4.5)
SPIA_2.64.0.tgz(r-4.6-any)SPIA_2.64.0.tgz(r-4.5-any)
SPIA_2.64.0.tar.gz(r-4.7-any)SPIA_2.64.0.tar.gz(r-4.6-any)
SPIA_2.64.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SPIA/json (API)

# Install 'SPIA' in R:
install.packages('SPIA', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • ALL_Colorectal - Results from a microarray experiment comparing colorectal cancer samples and normal tissue samples.
  • ALL_Vessels - Results from a microarray expriment comparing umbilical veins and arteries tissues
  • DE_Colorectal - Results from a microarray experiment comparing colorectal cancer samples and normal tissue samples.
  • DE_Vessels - Results from a microarray expriment comparing umbilical veins and arteries tissues
  • top - Results from a microarray experiment comparing colorectal cancer samples and normal tissue samples.

On BioConductor:SPIA-2.65.0(bioc 3.24)SPIA-2.64.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarraygraphandnetwork

6.59 score 4 packages 144 scripts 1.1k downloads 155 mentions 4 exports 8 dependencies

Last updated from:07118ad419 (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR172
linux-devel-x86_64NOTE307
source / vignettesOK302
linux-release-x86_64NOTE254
macos-release-arm64NOTE281
macos-oldrel-arm64NOTE290
windows-develNOTE652
windows-releaseNOTE684
windows-oldrelNOTE676
wasm-releaseOK140

Exports:combfuncmakeSPIAdataplotPspia

Dependencies:BiocGenericsbitopsgenericsgraphKEGGgraphRCurlRgraphvizXML

SPIA

Rendered fromSPIA.Rnwusingutils::Sweaveon Jun 15 2026.

Last update: 2013-11-01
Started: 2013-11-01