Meta-Clustering for scRNA-Seq Integration and Evaluation
Calculate Distance Matrix Using a Single Model
Downsampling Cells
Estimate the Empirical Probability of Whether Two Set of Cells from Di...
Final Clustering Step for Meta-Clustering
Gather Initial Cluster Names
Calculate the Similarity Matrix
Calculate IDER-Based Similarity Between Two Groups
Compute IDER-Based Similarity
Initial Clustering for Evaluating Integration
Initial Clustering
Merge Initial Clusters
Plot Similarity Matrix with pheatmap
Plot Heatmap for the IDER-Based Similarity Matrix
Plot Network Graph
Scatterplot by a selected feature
A workflow of (a) meta-clustering based on inter-group similarity measures and (b) a ground-truth-free test metric to assess the biological correctness of integration in real datasets. See Hu Z, Ahmed A, Yau C (2021) <doi:10.1101/2021.03.29.437525> for more details.
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