plotNhoodSizeHist | R Documentation |

This function plots the histogram of the number of cells belonging to each neighbourhood

plotNhoodSizeHist(milo, bins = 50)

`milo` |
A |

`bins` |
number of bins for |

A `ggplot-class`

object

Emma Dann

require(igraph) require(SingleCellExperiment) ux.1 <- matrix(rpois(12000, 5), ncol=400) ux.2 <- matrix(rpois(12000, 4), ncol=400) ux <- rbind(ux.1, ux.2) vx <- log2(ux + 1) pca <- prcomp(t(vx)) sce <- SingleCellExperiment(assays=list(counts=ux, logcounts=vx), reducedDims=SimpleList(PCA=pca$x)) colnames(sce) <- paste0("Cell", seq_len(ncol(sce))) milo <- Milo(sce) milo <- buildGraph(milo, k=20, d=10, transposed=TRUE) milo <- makeNhoods(milo, d=10, prop=0.1) plotNhoodSizeHist(milo)

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