Package: SCORPION 1.3.4

Daniel Osorio

SCORPION: Single Cell Oriented Reconstruction of PANDA Individually Optimized Networks

Constructs cell-type-specific gene regulatory networks from single-cell RNA-sequencing data. The method implements the SCORPION algorithm, which first aggregates individual cells into super-cells and then applies PANDA (Passing Attributes between Networks for Data Assimilation) to infer transcription factor-target regulatory relationships. It also provides statistical methods for differential edge analysis.

Authors:Daniel Osorio [aut, cre], Marieke L. Kuijjer [aut]

SCORPION_1.3.4.tar.gz
SCORPION_1.3.4.zip(r-4.7-any)SCORPION_1.3.4.zip(r-4.6-any)SCORPION_1.3.4.zip(r-4.5-any)
SCORPION_1.3.4.tgz(r-4.6-any)SCORPION_1.3.4.tgz(r-4.5-any)
SCORPION_1.3.4.tar.gz(r-4.7-any)SCORPION_1.3.4.tar.gz(r-4.6-any)
SCORPION_1.3.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
SCORPION/json (API)

# Install 'SCORPION' in R:
install.packages('SCORPION', repos = c('https://kuijjerlab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/kuijjerlab/scorpion/issues

Datasets:
  • scorpionTest - Example single-cell colorectal cancer data for SCORPION

On CRAN:

Conda:

cell-type-specificcomparative-edge-analysisgene-regulatory-networkpopulation-comparisonprotein-protein-interactionsingle-celltranscription-factorstranscriptomics

5.49 score 28 stars 20 scripts 632 downloads 7 exports 30 dependencies

Last updated from:ed45f62b66. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK182
source / vignettesOK273
linux-releaseOK204
macos-releaseOK236
macos-oldrelOK162
windows-develOK110
windows-releaseOK131
windows-oldrelOK122
wasm-releaseOK150

Exports:circosEdgesenrichEdgesmaEdgesregressEdgesrunSCORPIONscorpiontestEdges

Dependencies:clicodetoolscpp11digestdplyrfurrrfuturegenericsglobalsglueigraphirlbalatticelifecyclelistenvmagrittrMatrixparallellypbapplypillarpkgconfigpurrrR6RANNrlangtibbletidyselectutf8vctrswithr