Performing integration analysis of two datasets of different sizes in Seurat
I am following the Satija Lab's ctrl vs stim Seurat tutorial (https://satijalab.org/seurat/v3.1/immune_alignment.html) to integrate two datasets. My stim dataset contains 1500 more cells than my ctrl dataset. Does this bias my analysis (finding anchors, clustering, visualization by UMAP, DE)? Is there a way that I can account for this in the downstream analysis?
Thank you
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
PCA of variable features vs all genes in integrated analysis
written by aa123 •
-
Identifying appearance or disappearance of cell populations between WT and Mut single cell RNA-Seq …
written by AB
-
PCA value for integrated analysis in scRNA
written by ek699 •
-
Seurat integrated analysis - methods for cell-type specific responses
written by jomo018
-
Seurat integration of two datasets - GSE126783
written by vHelmholtz •
-
a question about filtering and integrating data in Seurat3
written by Bogdan
-
Question about scRNA-seq
written by tujuchuanli
-
Seurat DefaultAssay "integrated" or "RNA" with integrated dataset????
written by cook.675 •
-
Pull number of cells in cluster from seurat object
written by cook.675 •
-
Subsetting dataset to create 2 seurat objects
written by planetearth •
