Error when merging objects

[asta-a-t]

Hi all,

I'm having some issues with what I thought would be a relatively simple step of combining objects. I have gone through the "Introduction to scRNA-seq integration" article but have not been successful. The two objects I'm merging are from two different experiments, but of the same tissues. The initial pipeline has been the exact same, except for a step for subsetting for only one of the datasets. I've added the code and the error below, but note I have tried with and without "project = "neurons", merge.data = TRUE", and I get the same error.

I'd appreciate any help! Thank you.

neurons.combined <- merge(merged_obj1_integrated, y = merged_obj2_integrated_neuronsubset, add.cells.id = c("Batch1", "Batch2"), project = "neurons", merge.data = TRUE)
Warning: The following arguments are not used: add.cells.id
Warning: Some cell names are duplicated across objects provided. Renaming to enforce unique cell names.
Error in rbind(new_residual, old_residuals) :
number of columns of matrices must match (see arg 2)