将 Spatial 10x 数据上传到 seurat

Uploading Spatial 10x data into seurat

提问人:Maryam 提问时间:10/19/2023 更新时间:10/19/2023 访问量:48

问:

我正在尝试将我的 10X Visium 数据上传到 are,以便我可以创建一个 Seurat 对象,但由于某种原因,数据无法上传。我正在使用 Satija 实验室的代码来加载数据

Load10X_Spatial(
  data.dir,
  filename = "filtered_feature_bc_matrix.h5",   #here I have the h5 file for the filtered but I was wondering how would I also get the images to be uploaded as well because the output from the spaceranger has a folder called "Spatial" but I was not sure. 
  assay = "Spatial",
  slice = "slice1",
  filter.matrix = TRUE, 
  to.upper = FALSE,
  image = NULL,
  ...
)
R 空间 修拉

评论

1赞 neilfws 10/19/2023
我认为您正在尝试将数据“读取”到 R 中,而不是“上传”它。我建议在Seurat Discussions上问这个问题,因为它更多地与如何使用专用软件有关,而不是与R编程有关。

答: 暂无答案