Single-Cell Consensus Clustering


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Documentation for package ‘SC3’ version 1.1.4

Help Pages

calculate_distance Calculate a distance matrix
cell_filter Cell filter
consensus_matrix Calculate consensus matrix
gene_filter Gene filter
get_data Import expression matrix
get_de_genes Find differentially expressed genes
get_marker_genes Find marker genes
get_outl_cells Find cell outliers
iwanthue Generate a colour palette by k-means clustering of LAB colour space.
norm_laplacian Graph Laplacian calculation
sc3 SC3 main function
sc3_interactive SC3 interactive function
StabilityIndex Calculate the stability index of the obtained clusters when changing k
support_vector_machines Run support vector machines (SVM) prediction
swatch Plot colour swatches for a vector of colours
transformation Distance matrix transformation
treutlein Single cell RNA-Seq data extracted from a publication by Treutlein et al.