immanuelazn
commented
21 hours ago Hi ZhangFuchang, thanks for this! I've been noticing this was breaking tests starting at R 4.2/4.3 or so. I'll merge in, but do you mind setting your local upstream as the dev branch? I would like to provide you credit for this, but I do not want the changes from autocomment.yml. Otherwise, I can do this myself if you give me access to your fork.
when running addGeneIntegrationMatrix function, it will occur this error: "Error in slot(object = object, name = \"features\")[[layer]] <- features : \n more elements supplied than there are to replace\n"
After repeated testing, I finally know the answer to this question： This error occurred in the RNAIntegration.R of the ArchR package This code in the RNAIntegration.R file: seuratATAC <- Seurat::CreateSeuratObject(counts = mat[head(seq_len(nrow(mat)), 5), , drop = FALSE]) The Seurat::CreateSeuratObject function requires that the rownames of mat must be vector, not matrix. But the rownames passed to mat in the previous code was actually a matrix, so you only need to add a command line before this code, this will cast the rownames of mat to a vector: rownames(mat) <- as.character(rownames(mat)) And then this error was completely eliminated.