cellID-package | Multiple Correspondence Analysis on Single Cell for Joint... |
checkCellIDArg | Check for CellID arguments |
DimPlotMC | Seurat DimPlot for MCA like Dimensionality Reduction |
DistSort | Sort Gene Cell Distance Matrix |
fgseaCellID | reworked fgsea for ram and speed efficiency in CellID |
GetCellGeneDistance | Distance Calculation |
GetCellGeneRanking | Ranking Extraction |
GetCellGeneSet | Gene sets extraction from MCA |
GetGeneCellCoordinates | Get coordinates of both cells and features in a matrix |
GetGroupCoordinates | Centroids calculation for a given group |
GetGroupGeneDistance | Distance calculation between genes and group |
GetGroupGeneRanking | Gene Specificity Ranking Calculation |
GetGroupGeneSet | Extract cluster/group gene sets from MCA |
GetGSEAMatrix | Get Matrix from Enrichment Results |
GO_biological | Biological Process GO Terms |
Hallmark | Hallmark Pathways from MSigDB |
HgProteinCodingGenes | Homo Sapiens Protein Coding Genes |
import | Import |
integrateGSEASeurat | GSEA Results Integration in Seurat object |
MgProteinCodingGenes | Mus Musculus Protein Coding Genes |
pairDist | Distance Calculation with rdist |
plotReducedDimMC | Scater plotReducedDim for MCA like dimensionality Reduction |
RunCellGSEA | Run Gene Set Enrichment Analysis on cells |
RunCellHGT | Run HyperGeometric Test on cells |
RunGroupGSEA | Run GSEA on cluster/groups |
RunMCA | Run Multiple Correspondence Analysis |
RunMCDMAP | Run DiffusionMap on MCA cell and feature coordinates |
RunMCTSNE | Run TSNE on MCA fetures and cells coordinates |
RunMCUMAP | Run UMAP on MCA fetures and cells coordinates |
setDimMCSlot | SetDimSlot |
seuratPbmc | Seurat object of 400 PBMC cells |
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