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:
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
- filtered_lr_eg - Example for filtered_lr
- lr_db - Ligand-Receptor Pair Database
- lr_scores_eg - Example for lr_scores
- matrix_object - Example for matrix object
- metadata_eg - Example for metadata
Last updated from:6e4d7ba835. Checks:7 WARNING, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | WARNING | 202 | ||
| source / vignettes | OK | 487 | ||
| linux-release | WARNING | 369 | ||
| macos-release | WARNING | 201 | ||
| macos-oldrel | WARNING | 266 | ||
| windows-devel | WARNING | 163 | ||
| windows-release | WARNING | 412 | ||
| windows-oldrel | WARNING | 140 | ||
| wasm-release | OK | 317 |
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
