单细胞测序报错求解

代码library(SingleR)
counts<-pbmc@assays$RNA@counts
clusters<-pbmc@meta.data$seurat_clusters
ann=pbmc@meta.data$orig.ident
singler = CreateSinglerObject(counts, annot = ann, "pbmc", min.genes = 0,
  species = "Human", citation = "",
  ref.list = list(), normalize.gene.length = F, variable.genes = "de",
  fine.tune = F, do.signatures = T, clusters = clusters, do.main.types = T,
  reduce.file.size = T, numCores = 1)
singler$seurat = pbmc
singler$meta.data$xy = pbmc@reductions$tsne@cell.embeddings
clusterAnn=singler$singler[[2]]$SingleR.clusters.main$labels
write.table(clusterAnn,file="07.clusterAnn.txt",quote=F,sep="\t",col.names=F)
write.table(singler$other,file="07.cellAnn.txt",quote=F,sep="\t",col.names=F)
报错

library(SingleR)
> counts<-pbmc@assays$RNA@counts
错误: 没有名称为"counts"的插槽对于此对象类 "Assay5"
> clusters<-pbmc@meta.data$seurat_clusters
> ann=pbmc@meta.data$orig.ident
> singler = CreateSinglerObject(counts, annot = ann, "pbmc", min.genes = 0,
+   species = "Human", citation = "",
+   ref.list = list(), normalize.gene.length = F, variable.genes = "de",
+   fine.tune = F, do.signatures = T, clusters = clusters, do.main.types = T,
+   reduce.file.size = T, numCores = 1)
错误于CreateSinglerObject(counts, annot = ann, "pbmc", min.genes = 0, : 
  没有"CreateSinglerObject"这个函数
> singler$seurat = pbmc
错误: 找不到对象'singler'
> singler$meta.data$xy = pbmc@reductions$tsne@cell.embeddings
错误: 找不到对象'singler'
> clusterAnn=singler$singler[[2]]$SingleR.clusters.main$labels
错误: 找不到对象'singler'
评论 1
添加红包

请填写红包祝福语或标题

红包个数最小为10个

红包金额最低5元

当前余额3.43前往充值 >
需支付:10.00
成就一亿技术人!
领取后你会自动成为博主和红包主的粉丝 规则
hope_wisdom
发出的红包
实付
使用余额支付
点击重新获取
扫码支付
钱包余额 0

抵扣说明:

1.余额是钱包充值的虚拟货币,按照1:1的比例进行支付金额的抵扣。
2.余额无法直接购买下载,可以购买VIP、付费专栏及课程。

余额充值