Package: SuperCell 1.0
SuperCell: Simplification of scRNA-seq data by merging together similar cells
Aggregates large single-cell data into metacell dataset by merging together gene expression of very similar cells.
Authors:
SuperCell_1.0.tar.gz
SuperCell_1.0.zip(r-4.5)SuperCell_1.0.zip(r-4.4)SuperCell_1.0.zip(r-4.3)
SuperCell_1.0.tgz(r-4.4-any)SuperCell_1.0.tgz(r-4.3-any)
SuperCell_1.0.tar.gz(r-4.5-noble)SuperCell_1.0.tar.gz(r-4.4-noble)
SuperCell_1.0.tgz(r-4.4-emscripten)SuperCell_1.0.tgz(r-4.3-emscripten)
SuperCell.pdf |SuperCell.html✨
SuperCell/json (API)
# Install 'SuperCell' in R: |
install.packages('SuperCell', repos = c('https://gfellerlab.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/gfellerlab/supercell/issues
- cell_lines - Cancer cell lines dataset
- pancreas - Pancreatic cell dataset
softwarecoarse-grainingscrna-seq-analysisscrna-seq-data
Last updated 4 months agofrom:5de820e93b. Checks:ERROR: 1 NOTE: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | FAIL | Nov 05 2024 |
R-4.5-win | NOTE | Nov 05 2024 |
R-4.5-linux | NOTE | Nov 05 2024 |
R-4.4-win | NOTE | Nov 05 2024 |
R-4.4-mac | NOTE | Nov 05 2024 |
R-4.3-win | NOTE | Nov 05 2024 |
R-4.3-mac | NOTE | Nov 05 2024 |
Exports:anndata_2_supercellbuild_knn_graphmetacell2_anndata_2_supercellsc_mixing_scoreSCimplifySCimplify_for_velocitySCimplify_from_embeddingsupercell_2_scesupercell_2_Seuratsupercell_assignsupercell_clustersupercell_DimPlotsupercell_estimate_velocitysupercell_FindAllMarkerssupercell_FindMarkerssupercell_GEsupercell_GeneGenePlotsupercell_mergesupercell_mergeGEsupercell_plotsupercell_plot_GEsupercell_plot_tSNEsupercell_plot_UMAPsupercell_prcompsupercell_puritysupercell_rescalesupercell_silhouettesupercell_tSNEsupercell_UMAPsupercell_VlnPlot
Dependencies:askpassassortheadbackportsbase64encBHBiocGenericsBiocNeighborsBiocParallelbitbit64blusterbootbroombslibcachemcheckmateclicliprclustercodetoolscolorspacecorpcorcowplotcpp11crayondata.tabledbscandigestdoFuturedplyrentropyevaluatefansifarverfastclusterfastmapfontawesomeforcatsforeachforeignformatRFormulafsfutile.loggerfutile.optionsfuturefuture.applygdatagenericsggplot2glmnetglobalsgluegridExtragtablegtoolshavenherehighrHmischmshtmlTablehtmltoolshtmlwidgetsigraphirlbaisobanditeratorsjomojquerylibjsonliteknitrlabelinglambda.rlatticelifecyclelistenvlme4magrittrMASSMatrixmatrixStatsmemoisemgcvmicemimeminqamitmlmunsellnlmenloptrnnetnumDerivopensslordinalpanparallellypatchworkpermutepillarpkgconfigplotfunctionsplyrpngprettyunitsprogressprogressrproxypurrrR6RANNrappdirsRColorBrewerRcppRcppEigenRcppTOMLreadrreticulaterlangrmarkdownrpartrprojrootRSpectrarstudioapiRtsneS4VectorssassscalesshapesnowstringistringrsurvivalsystibbletidyrtidyselecttinytexTraMineRtzdbucminfumaputf8vctrsveganvegclustviridisviridisLitevroomWeightedClusterweightswithrxfunyaml
Combined or independent SuperCell runs for different samples
Rendered fromb_Combined_vs_independent_sample_processing.Rmd
usingknitr::rmarkdown
on Nov 05 2024.Last update: 2022-07-18
Started: 2022-07-18
Example of the SuperCell pipeline
Rendered froma_SuperCell.Rmd
usingknitr::rmarkdown
on Nov 05 2024.Last update: 2023-09-13
Started: 2022-07-18
RNA-velocity for SuperCell
Rendered fromc_RNAvelocity_for_SuperCell.Rmd
usingknitr::rmarkdown
on Nov 05 2024.Last update: 2022-07-18
Started: 2022-07-18