All functions
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HDG_ranking()
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Highly dropped-out gene selection |
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Seurat_CCA_GeneLoading()
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Wrapper around Seurat's CCA to extract gene loadings |
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batch_separation()
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Compute the batch separation metric |
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combine_sces()
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Combine several SingleCellExperiment objects |
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corgi()
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The user friendly version of corgi |
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corgi_select_genes()
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Select genes |
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dhillon_emb()
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The embedding as defined in Dhillon, Inderjit S. "Co-clustering documents and words using bipartite spectral graph partitioning." Proceedings of the seventh ACM SIGKDD international conference on Knowledge discovery and data mining. ACM, 2001. |
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get_axes_legend()
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Empty plot with just the axes and labels |
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get_color_legend()
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Legend for colors in a scatter plot |
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get_compared_gene_sets()
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Get compared gene sets |
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get_membership_labels_from_set_list()
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Convert a list of sets to a membership vector |
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get_scatterplots()
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Return a list of scatter plots |
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get_shape_legend()
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Legend for shapes in a scatter plot |
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plot_dimensionality_reduction()
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Wrapper around qplot for making cell scatter plots |
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run_mapping_accuracy_comparison()
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Run scmap over a range of parameters, over multiple gene sets |
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run_par_fs()
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The inner loop of corgi |
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run_scmapCell()
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Wrapper for scmap::scmapCell |
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run_scmapCluster()
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Wrapper for scmap::scmapCluster |
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sample_cells()
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Subsample cells random |
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spearman_rho_mds()
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Multidimensional scaling on Spearman rho correlation distance |
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top_n_genes()
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Return the top genes according to a named vector. |