SoupX is an essential tool for ambient RNA decontamination in single-cell RNA sequencing data. Ambient RNA in solution is partitioned into droplets and confounds downstream analyses. This concise tutorial covers SoupX implementation for both R (Seurat objects) and Python (Scanpy objects), offering step-by-step guidance and expert insights to improve data quality and accuracy in your single-cell analyses.
Other tools exist such as DecontX, CellBender, SCVI-scar, etc. They all do more or less the same thing but perform differently depending on the situation.
GitHub:
github.com/mou...
0:00 - Introduction
1:05 - R and Seurat
5:50 - Python and Scanpy
10:54 - Results
Негізгі бет Ғылым және технология Single-cell background decontamination in R and Python with SoupX
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