空间转录组|Load10X_Spatial函数修改适配多形式数据 + 空转标准流程在空间转录组|数据读入,标准数据形式外,还有哪些"天残地缺"可以读取提到了多种形式的数据读取,在原函数Load10X_Spatial的基础上进行了 “简陋”的修改,添加一些判断使之可以读取上文提到的多种数据形式。 后台回复 “函数” 既可以获取Load10X_Spati...
data.dir=".\\outs_onlyhires_h5\\"T2<-Load10X_Spatial_change(data.dir=data.dir,filename="filtered_feature_bc_matrix.h5",#slice="sli",image.name="tissue_hires_image.png")for(iincolnames((T2@images[[1]]@coordinates))){T2@images[[1]]@coordinates[[i]]<-as.integer(T2@images[[1]]@...
data.dir = ".\\outs_onlyhires_h5\\"T2 <- Load10X_Spatial_change(data.dir = data.dir,filename = "filtered_feature_bc_matrix.h5",#slice = "sli",image.name = "tissue_hires_image.png")for (i in colnames((T2@images[[1]]@coordinates))) {T2@images[[1]]@coordinates[[i]] <- as...
data.dir = ".\\outs_onlyhires_h5\\"T2 <- Load10X_Spatial_change(data.dir = data.dir,filename = "filtered_feature_bc_matrix.h5",#slice = "sli",image.name = "tissue_hires_image.png")for (i in colnames((T2@images[[1]]@coordinates))) {T2@images[[1]]@coordinates[[i]] <- as...
Today I started getting this issue with Load10X_Spatial while trying to load a dataset. Error in Load10X_Spatial(paste0("project_visium_human_mar2023/", sample_names[i], : Image must be an object of class 'VisiumV1'. then looking at the ...
Error in Load10X_Spatial(data.dir = data_dir) : Image must be an object of class 'VisiumV1'. Then to fix this I try to add an image file by using the following command which outputs a "LargeVisiumV1" image_dir <- "/mnt/DATA/LairdLab/rojas/SCT_SpTrProject/data/05outs/spatial/...
后台回复 “函数” 既可以获取Load10X_Spatial_change.R和 测试数据文件。第二部分为空转的Seurat标准分析流程,重点介绍了和单细胞转录组的差异。 一Load10X_Spatial_change函数测试 加载R包和函数,然后使用不用场景进行测试。 library(Seurat)library(jsonlite)library(png)library(tidyverse)library(ggpubr)library(...