本人处理数据后得到
> sce <- runPCA(sce)
> set.seed(1000)
> sce <- runTSNE(sce, perplexity = 10)
> sce <- runDiffusionMap(sce)
> sce
class: SingleCellExperiment
dim: xxxxx xxxxx
metadata(0):
assays(2): counts logcounts
rownames(xxxxx): xxxx xxxxx ... xxxx ''
rowData names(0):
colnames(xxxxx): xxxxxxxxx xxxxxxxxxxxx ... xxxxxxxxxxxx
xxxxxxxxxxxx
colData names(3): g n_g all
reducedDimNames(3): PCA TSNE DiffusionMap
mainExpName: NULL
altExpNames(0):
但
> head(sce@reducedDimNames$TSNE,3)
Error in h(simpleError(msg, call)) :
在为'head'函数选择方法时评估'x'参数出了错: "reducedDimNames"槽名不存在于"SingleCellExperiment"类别对象中
> kmeans(sce@reducedDimNames$TSNE,centers = 4)
Error in as.matrix(x) :
"reducedDimNames"槽名不存在于"SingleCellExperiment"类别对象中
并且运行view(sce)后找不到对象
reducedDimNames(3): PCA TSNE DiffusionMap
不知道是哪里出了问题