Package: PopComm 1.0.1

Zheng Gong

PopComm: Population-Level Cell-Cell Communication Analysis Tools

Facilitates population-level analysis of ligand-receptor (LR) interactions using large-scale single-cell transcriptomic data. Identifies significant LR pairs and quantifies their interactions through correlation-based filtering and projection score computations. Designed for large-sample single-cell studies, the package employs statistical modeling, including linear regression, to investigate LR relationships between cell types. It provides a systematic framework for understanding cell-cell communication, uncovering regulatory interactions and signaling mechanisms. Offers tools for LR pair-level, sample-level, and differential interaction analyses, with comprehensive visualization support to aid biological interpretation. The methodology is described in a manuscript currently under review and will be referenced here once published or publicly available.

Authors:Zheng Gong [aut, cre], Mengwei Li [aut, ctb]

PopComm_1.0.1.tar.gz
PopComm_1.0.1.zip(r-4.7-any)PopComm_1.0.1.zip(r-4.6-any)PopComm_1.0.1.zip(r-4.5-any)
PopComm_1.0.1.tgz(r-4.6-any)PopComm_1.0.1.tgz(r-4.5-any)
PopComm_1.0.1.tar.gz(r-4.7-any)PopComm_1.0.1.tar.gz(r-4.6-any)
PopComm_1.0.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
PopComm/json (API)

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

Bug tracker:https://github.com/justicego/popcomm/issues

Datasets:

On CRAN:

Conda:

3.18 score 1 stars 1 scripts 302 downloads 13 exports 178 dependencies

Last updated from:6e4d7ba835. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develWARNING202
source / vignettesOK487
linux-releaseWARNING369
macos-releaseWARNING201
macos-oldrelWARNING266
windows-develWARNING163
windows-releaseWARNING412
windows-oldrelWARNING140
wasm-releaseOK317

Exports:boxplot_lr_group_comparisoncircle_plotdot_plotdotplot_lr_continuous_groupfilter_lr_allfilter_lr_singleheatmap_samplelr_linear_model_discreteone_step_allone_step_singlepca_samplescore_lr_allscore_lr_single

Dependencies:abindaskpassbackportsbase64encBHbitopsbootbroombslibcachemcarcarDatacaToolscliclustercodetoolscolorspacecommonmarkcorrplotcowplotcpp11crosstalkcurldata.tabledeldirDerivdigestdoBydotCall64dplyrdqrngevaluatefarverfastDummiesfastmapfitdistrplusFNNfontawesomeforecastFormulafracdifffsfuturefuture.applygenericsggplot2ggpubrggrepelggridgesggsciggsignifglobalsgluegoftestgplotsgridExtragtablegtoolsherehighrhtmltoolshtmlwidgetshttpuvhttricaigraphirlbaisobandjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelazyevallifecyclelistenvlme4lmtestmagrittrMASSMatrixMatrixModelsmatrixStatsmemoisemgcvmimeminiUIminqamodelrnlmenloptrnnetnumDerivopensslotelparallellypatchworkpbapplypbkrtestpbmcapplypheatmappillarpkgconfigplotlyplyrpngpolyclippolynomprogressrpromisespurrrquantregR6RANNrappdirsrbibutilsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppProgressRcppThreadRcppTOMLRdpackreformulasreshape2reticulaterlangrmarkdownROCRrprojrootRSpectrarstatixRtsneS7sassscalesscattermoresctransformSeuratSeuratObjectshinysitmosourcetoolsspspamSparseMspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstringistringrsurvivalsystensortibbletidyrtidyselecttimeDatetinytexurcautf8uwotvctrsviridisLitewithrxfunxtableyamlzoo