Meta-Clustering for scRNA-Seq Integration and Evaluation

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Documentation for package ‘CIDER’ version 0.99.4

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

calculateDistMatOneModel	Calculate Distance Matrix Using a Single Model
downsampling	Downsampling Cells
estimateProb	Estimate the Empirical Probability of Whether Two Set of Cells from Distinct Batches Belong to the Same Population
finalClustering	Final Clustering Step for Meta-Clustering
gatherInitialClusters	Gather Initial Cluster Names
getDistMat	Calculate the Similarity Matrix
getGroupFit	Calculate IDER-Based Similarity Between Two Groups
getIDEr	Compute IDER-Based Similarity
hdbscan.seurat	Initial Clustering for Evaluating Integration
initialClustering	Initial Clustering
mergeInitialClusters	Merge Initial Clusters
pancreas_meta	Pancreas Metadata
plotDistMat	Plot Similarity Matrix with pheatmap
plotHeatmap	Plot Heatmap for the IDER-Based Similarity Matrix
plotNetwork	Plot Network Graph
scatterPlot	Scatterplot by a selected feature