Package: scGenePanel 0.99.0

Jean-Philippe Cartailler

scGenePanel: Multi-panel visualization for single cell expression data

scGenePanel creates coordinated, gene-centric multi-panel visualizations for single-cell RNA-seq data stored in Seurat or SingleCellExperiment objects. It combines group-stratified UMAP embeddings, cell-type-specific expression distributions, and quantitative cell-frequency and expression summaries in a single figure. An accompanying Shiny application supports interactive exploration using the same workflow.

Authors:Shristi Shrestha [aut], Jean-Philippe Cartailler [aut, cre]

scGenePanel_0.99.0.tar.gz
scGenePanel_0.99.0.zip(r-4.7-any)scGenePanel_0.99.0.zip(r-4.6-any)scGenePanel_0.99.0.zip(r-4.5-any)
scGenePanel_0.99.0.tgz(r-4.6-any)scGenePanel_0.99.0.tgz(r-4.5-any)
scGenePanel_0.99.0.tar.gz(r-4.7-any)scGenePanel_0.99.0.tar.gz(r-4.6-any)
scGenePanel_0.99.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scGenePanel/json (API)

# Install 'scGenePanel' in R:

install.packages('scGenePanel', repos = c('https://biocstaging.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/vandydata/scgenepanel/issues

On CRAN:

software geneexpression singlecell visualization dimensionreduction transcriptomics

3.00 score 2 scripts 2 exports 228 dependencies

Last updated from:172d0bd70d. Checks:1 NOTE, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	NOTE	249
linux-devel	OK	315
source / vignettes	OK	348
linux-release	OK	402
macos-release	OK	242
macos-oldrel	OK	248
windows-devel	OK	344
windows-release	OK	373
windows-oldrel	OK	298
wasm-release	OK	196

Exports:scGenePanel scGenePanelShiny

Dependencies:abind askpass backports base64enc beeswarm BH Biobase BiocGenerics bitops boot broom bslib cachem Cairo car carData caTools circlize cli cluster codetools colorspace commonmark corrplot cowplot cpp11 crosstalk curl data.table DelayedArray deldir Deriv digest doBy dotCall64 dplyr dqrng evaluate farver fastDummies fastmap fitdistrplus flextable FNN fontawesome fontBitstreamVera fontLiberation fontquiver forcats forecast Formula fracdiff fs future future.apply gdtools generics GenomicRanges ggbeeswarm ggforce ggplot2 ggprism ggpubr ggrastr ggrepel ggridges ggsci ggsignif ggthemes GlobalOptions globals glue goftest gplots gridExtra gtable gtools here highr hms htmltools htmlwidgets httpuv httr ica igraph IRanges irlba isoband janitor jquerylib jsonlite KernSmooth knitr labeling later lattice lazyeval lifecycle listenv lme4 lmtest lubridate magrittr MASS Matrix MatrixGenerics MatrixModels matrixStats mcprogress memoise mgcv mime miniUI minqa modelr nlme nloptr nnet numDeriv officer openssl otel paletteer parallelly patchwork pbapply pbkrtest pillar pkgconfig plotly plyr png polyclip polynom prismatic progressr promises purrr quantreg R6 ragg RANN rappdirs rbibutils RColorBrewer Rcpp RcppAnnoy RcppArmadillo RcppEigen RcppHNSW RcppProgress RcppThread RcppTOML Rdpack reformulas rematch2 reshape2 reticulate rlang rmarkdown ROCR rprojroot RSpectra rstatix rstudioapi Rtsne S4Arrays S4Vectors S7 sass scales scattermore scCustomize sctransform Seqinfo Seurat SeuratObject shape shiny shinydashboard shinyjs shinyWidgets SingleCellExperiment sitmo snakecase sourcetools sp spam SparseArray SparseM spatstat.data spatstat.explore spatstat.geom spatstat.random spatstat.sparse spatstat.univar spatstat.utils stringi stringr SummarizedExperiment survival sys systemfonts tensor textshaping tibble tidyr tidyselect timechange timeDate tinytex tweenr urca utf8 uuid uwot vctrs vipor viridisLite withr xfun xml2 xtable XVector yaml zip zoo

Getting Started with scGenePanel

Rendered fromscGenePanel.Rmdusingknitr::rmarkdown

Last update: 2026-09-08
Started: 2023-07-22

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Check if dimension reduction embedding exists	.check_if_dim_red_exists
Discrete color palettes from multiple packages (varibow, Rcolorbrewer, ggtheme)	discrete_col_palette
scGenePanel - A method for generating scRNAseq multi-panel gene expression visuals that are focused on one gene, all cell types, and a chosen metadata attribute of interest.	scGenePanel
Launch Interactive Gene Panel Shiny Application	scGenePanelShiny