Package: SpaCCI 1.0.2
Li-Ting Ku
SpaCCI: Spatially Aware Cell-Cell Interaction Analysis
Provides tools for analyzing spatial cell-cell interactions based on ligand-receptor pairs, including functions for local, regional, and global analysis using spatial transcriptomics data. Integrates with databases like 'CellChat' <http://www.cellchat.org/>, 'CellPhoneDB' <https://www.cellphonedb.org/>, 'Cellinker' <https://www.rna-society.org/cellinker/>, 'ICELLNET' <https://github.com/soumelis-lab/ICELLNET>, and 'ConnectomeDB' <https://humanconnectome.org/software/connectomedb/> to identify ligand-receptor pairs, visualize interactions through heatmaps, chord diagrams, and infer interactions on different spatial scales.
Authors:
SpaCCI_1.0.2.tar.gz
SpaCCI_1.0.2.tar.gz(r-4.5-noble)SpaCCI_1.0.2.tar.gz(r-4.4-noble)
SpaCCI_1.0.2.tgz(r-4.4-emscripten)
SpaCCI.pdf |SpaCCI.html✨
SpaCCI/json (API)
# Install 'SpaCCI' in R: |
install.packages('SpaCCI', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- result_global - Result_global data for SpaCCI
- result_local - Result_local data for SpaCCI
- test_data - Test data for SpaCCI
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:a576b905fd. Checks:OK: 2. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Dec 24 2024 |
R-4.5-linux-x86_64 | OK | Dec 24 2024 |
Exports:Find_regional_IDsGetShuffledCTGlobal_PermutationsLocal_Regional_PermutationsLR_databaseplot_localizedplot_localized_Seuratplot_SpaCCI_chordDiagramplot_SpaCCI_heatmapplot_SpaCCI_localpossible_L_R_pairs_cellchatpossible_L_R_pairs_Cellinkerpossible_L_R_pairs_cellphoneDBpossible_L_R_pairs_connectomepossible_L_R_pairs_ICELLNETrandom_regionrun_SpaCCIscPaletteSpaCCI_globalSpaCCI_localSpaCCI_region
Dependencies:abindaskpassbase64encBHbitopsbslibcachemcaToolscirclizecliclustercodetoolscolorspacecommonmarkcowplotcpp11crayoncrosstalkcurldata.tabledeldirdigestdotCall64dplyrdqrngevaluatefansifarverfastDummiesfastmapfitdistrplusFNNfontawesomefsfuturefuture.applygenericsggplot2ggrepelggridgesGlobalOptionsglobalsgluegoftestgplotsgridExtragtablegtoolsherehighrhtmltoolshtmlwidgetshttpuvhttricaigraphirlbaisobandjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelazyevalleidenlifecyclelistenvlmtestmagrittrMASSMatrixmatrixStatsmemoisemgcvmimeminiUImunsellnlmennlsopensslparallellypatchworkpbapplypheatmappillarpkgconfigplotlyplyrpngpolyclipprogressrpromisespurrrR6RANNrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppProgressRcppTOMLreshape2reticulaterlangrmarkdownROCRrprojrootRSpectraRtsnesassscalesscattermoresctransformSeuratSeuratObjectshapeshinysitmosourcetoolsspspamspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstringistringrsurvivalsystensortibbletidyrtidyselecttinytexutf8uwotvctrsviridisLitewithrxfunxtableyamlzoo