Error in FetchData while subseting Nanostring obj

[alicekao1118]

Hi all,

I'm currently processing a Nanostring dataset using Seurat and am trying to remove cells with NA values in a metadata column (V1). I attempted the following:

slide1 <- subset(slide1, subset = !is.na(V1))

However, I encountered this error:

Error in `FetchData()`:
! None of the requested variables were found: 
Run `rlang::last_trace()` to see where the error occurred.

Trace output:

Error in `FetchData()`:
! None of the requested variables were found: 
---
Backtrace:
    ▆
 1. ├─base::subset(slide1, subset = !is.na(V1))
 2. └─SeuratObject:::subset.Seurat(slide1, subset = !is.na(V1))
 3.   ├─SeuratObject::WhichCells(...)
 4.   └─SeuratObject:::WhichCells.Seurat(...)
 5.     ├─SeuratObject::FetchData(...)
 6.     └─SeuratObject:::FetchData.Seurat(...)

I've double-checked the metadata column name—V1 exists and is correctly spelled.

sum(is.na(slide1$V1)) # [1] 2080
head(slide1$V1)
      1_1         2_1         3_1         4_1         5_1         6_1 
"Slide1_1_1"       NA   "Slide1_3_1" "Slide1_4_1" "Slide1_5_1" "Slide1_6_1" 

Here is my session info:

other attached packages:
[1] sf_1.0-20          data.table_1.16.4  dplyr_1.1.4        
    Seurat_5.2.1       SeuratObject_5.0.2 sp_2.2-0

I'd appreciate any suggestions or workarounds.

Thanks,
Alice