Do I need to perform basic filtering before using scrublet?
Hello,
I am analyzing single cell gene expression data and I would like to use scrublet to remove doublets. Do I need to perform basic filtering like shown below before using scrublet or should I just use scrublet right after importing the h5 matrix file?
Basic filtering:
sc.pp.filter_cells(sample, min_genes=200)
sc.pp.filter_genes(sample, min_cells=3)
Thank you
1 answer
Log in to answer this question.
More posts like this
-
How to merge two species of scATAC data
written by 星月 •
-
Do I need to remove doublets after before or after running hashsolo?
written by bioinfo •
-
Seeking Advice on Pre-processing Single Cell Data for Gene Mapping
written by monklod •
-
How to plot proportion of cells in each cluster with scanpy?
written by bioinfo •
-
scanpy problem for empty cells
written by Andy •
-
how to determine n_cells_by_count
written by dalibenam64 •
-
single cell RNA analysis in python
written by sooni •
-
Two 10x single cell sample quality control steps and differential expression analysis
written by Ri •
-
[SOLVED] How to build a table with gene expression per cell type with Seurat ?
written by Evan •
-
Single Cell RNA-seq Mitochondrial Gene Expression
written by bioinformatics.cancer
