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Stop using deprecated argument
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@agdenadel
agdenadel committed Feb 16, 2024
1 parent 70a6864 commit e6eade4
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion R/callback.R
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Expand Up @@ -25,7 +25,7 @@ get_seurat_obj_with_knockoffs <- function(seurat_obj, assay = "RNA", verbose = T
message("Pulling data from Seurat object")
}
#seurat_obj_data <- as.data.frame(t(as.matrix(seurat_obj@assays$RNA@counts[Seurat::VariableFeatures(seurat_obj),])))

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file=/github/workspace/R/callback.R,line=27,col=4,[commented_code_linter] Commented code should be removed.

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file=/github/workspace/R/callback.R,line=27,col=81,[line_length_linter] Lines should not be more than 80 characters.
seurat_obj_data <- as.data.frame(t(as.matrix(Seurat::GetAssayData(seurat_obj, assay = assay, slot = "counts")[Seurat::VariableFeatures(seurat_obj), ])))
seurat_obj_data <- as.data.frame(t(as.matrix(Seurat::GetAssayData(seurat_obj, assay = assay, layer = "counts")[Seurat::VariableFeatures(seurat_obj), ])))

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if (verbose) {
message("Computing MLE for zero-inflated poisson")
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