Package: scToppR 1.1.0

Bryan Granger

scToppR: API Wrapper for ToppGene

scToppR provides an easy-to-use API wrapper for the ToppGene web platform, used for gene ontology and functional enrichment research. The package also integrates visualization tools, making it a convenient tool directly connecting ToppGene to code-based workflows in R. The tool can also easily save results into different formats.

Authors:Bryan Granger [aut, cre]

scToppR_1.1.0.tar.gz
scToppR_1.1.0.zip(r-4.7)scToppR_1.1.0.zip(r-4.6)scToppR_1.1.0.zip(r-4.5)
scToppR_1.1.0.tgz(r-4.6-any)scToppR_1.1.0.tgz(r-4.5-any)
scToppR_1.1.0.tar.gz(r-4.7-any)scToppR_1.1.0.tar.gz(r-4.6-any)
scToppR_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scToppR/json (API)

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

Bug tracker:https://github.com/bioinformaticsmusc/sctoppr/issues

Datasets:

On BioConductor:scToppR-1.1.0(bioc 3.24)scToppR-1.0.0(bioc 3.23)

pathwayssinglecell

6.18 score 7 stars 18 scripts 7 exports 40 dependencies

Last updated from:c7f53065cb. Checks:8 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING200
linux-devel-x86_64WARNING287
source / vignettesOK332
linux-release-x86_64WARNING304
macos-release-arm64WARNING145
macos-oldrel-arm64WARNING185
windows-develWARNING259
windows-releaseWARNING241
windows-oldrelWARNING211
wasm-releaseOK189

Exports:addToppDataget_Entrezget_ToppCatstoppBalloontoppFuntoppPlottoppSave

Dependencies:askpassclicpp11curldplyrfarverforcatsgenericsggplot2gluegridExtragtablehttr2isobandlabelinglifecyclemagrittropensslopenxlsxpatchworkpillarpkgconfigR6rappdirsRColorBrewerRcpprlangS7scalesstringistringrsystibbletidyselectutf8vctrsviridisviridisLitewithrzip

scToppR with differential expression, Airway dataset
Introduction | Installation | Load Data and Perform Differential Expression Analysis | Using scToppR with Differential Expression Results | Visualizing ToppGene Results | Saving ToppGene Results
Rendered fromdifferential_expression_airway.Rmdusingknitr::rmarkdown

Last update: 2026-03-31
Started: 2024-10-08

Introduction to scToppR
Introduction | Installation | Load Data | Plotting | Saving
Rendered fromintroduction.Rmdusingknitr::rmarkdown

Last update: 2026-03-31
Started: 2023-12-19

scToppR with differential expression, Seurat object data
Introduction | Installation | Load Data | Running scToppR with Differential Expression Results | Visualizing ToppGene Results | Saving ToppGene Results
Rendered fromdifferential_expression_seurat.Rmdusingknitr::rmarkdown

Last update: 2026-03-31
Started: 2024-10-08