Package: CCPlotR 1.11.0

Sarah Ennis

CCPlotR: Plots For Visualising Cell-Cell Interactions

CCPlotR is an R package for visualising results from tools that predict cell-cell interactions from single-cell RNA-seq data. These plots are generic and can be used to visualise results from multiple tools such as Liana, CellPhoneDB, NATMI etc.

Authors:Sarah Ennis [aut, cre], Pilib Ó Broin [aut], Eva Szegezdi [aut]

CCPlotR_1.11.0.tar.gz
CCPlotR_1.11.0.zip(r-4.7)CCPlotR_1.11.0.zip(r-4.6)CCPlotR_1.11.0.zip(r-4.5)
CCPlotR_1.11.0.tgz(r-4.6-any)CCPlotR_1.11.0.tgz(r-4.5-any)
CCPlotR_1.11.0.tar.gz(r-4.7-any)CCPlotR_1.11.0.tar.gz(r-4.6-any)
CCPlotR_1.11.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
CCPlotR/json (API)

# Install 'CCPlotR' in R:

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

Bug tracker:https://github.com/sarah145/ccplotr/issues

Datasets:

toy_data - Toy data for CCPlotR
toy_exp - Toy expression data for CCPlotR

On BioConductor:CCPlotR-1.11.0(bioc 3.24)CCPlotR-1.10.0(bioc 3.23)

singlecell network visualization cellbiology systemsbiology

6.08 score 47 stars 17 scripts 9 exports 88 dependencies

Last updated from:c9867d1fcb. Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	WARNING	175
linux-devel-x86_64	NOTE	237
source / vignettes	OK	284
linux-release-x86_64	NOTE	233
macos-release-arm64	NOTE	151
macos-oldrel-arm64	NOTE	120
windows-devel	NOTE	181
windows-release	NOTE	146
windows-oldrel	NOTE	169
wasm-release	OK	173

Exports:cc_arrow cc_circos cc_dotplot cc_heatmap cc_network cc_sigmoid geom_sigmoid paletteMartin StatSigmoid

Dependencies:base64enc BiocGenerics cachem circlize cli clue cluster codetools colorspace commonmark ComplexHeatmap cpp11 crayon curl digest doParallel dplyr farver fastmap forcats foreach fs generics GetoptLong ggforce ggfun ggh4x ggplot2 ggraph ggrepel ggtext GlobalOptions glue graphlayouts gridExtra gridtext gtable igraph IRanges isoband iterators jpeg jsonlite labeling lattice lifecycle litedown magrittr markdown MASS Matrix matrixStats memoise patchwork pillar pkgconfig plyr png polyclip purrr R6 rappdirs RColorBrewer Rcpp RcppArmadillo rjson rlang S4Vectors S7 scales scatterpie shape stringi stringr systemfonts tibble tidygraph tidyr tidyselect tweenr utf8 vctrs viridis viridisLite withr xfun xml2 yulab.utils

Generating visualisations of cell-cell interactions with CCPlotR

Rendered fromCCPlotR_visualisations.Rmdusingknitr::rmarkdown

Last update: 2023-10-06
Started: 2023-10-06

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Paired Arrow Plot Function	cc_arrow
Circos Plot Function	cc_circos
Dotplot Function	cc_dotplot
Heatmap Function	cc_heatmap
Network Plot Function	cc_network
Sigmoid Plot Function	cc_sigmoid
geom_sigmoid This function is copied from the ggbump package	geom_sigmoid
Discrete palette generator	paletteMartin
This function is copied from the ggbump package	StatSigmoid
Toy data for CCPlotR	toy_data
Toy expression data for CCPlotR	toy_exp