Heterogeneity-Induced Pre-Processing tOol

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Documentation for package ‘HIPPO’ version 1.16.0

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

Help Pages

%>%	re-export magrittr pipe operator
ensg_hgnc	A reference data frame that matches ENSG IDs to HGNC symbols
get_data_from_sce	Access data from SCE object
get_hippo	Access hippo object from SingleCellExperiment object.
get_hippo_diffexp	Return hippo_diffexp object
hippo	HIPPO's hierarchical clustering
hippo_diagnostic_plot	Conduct feature selection by computing test statistics for each gene
hippo_diffexp	HIPPO's differential expression
hippo_dimension_reduction	compute t-SNE or umap of each round of HIPPO
hippo_feature_heatmap	HIPPO's feature heatmap
hippo_pca_plot	visualize each round of hippo through t-SNE
hippo_tsne_plot	visualize each round of hippo through t-SNE
hippo_umap_plot	visualize each round of hippo through UMAP
nb_prob_zero	Expected zero proportion under Negative Binomial
pois_prob_zero	Expected zero proportion under Poisson
preprocess_heterogeneous	Preprocess UMI data without cell label so that each row contains information about each gene
preprocess_homogeneous	Preprocess UMI data with inferred or known labels
toydata	A sample single cell sequencing data subsetted from Zheng2017
zero_proportion_plot	visualize each round of hippo through zero proportion plot
zinb_prob_zero	Expected zero proportion under Negative Binomial