CreateInfercnvObject    CreateInfercnvObject
HMM_states              infercnv object result of the processing of
                        run() in the HMM example, to be used for other
                        examples.
MCMC_inferCNV-class     MCMC_inferCNV class
add_to_seurat           add_to_seurat()
apply_median_filtering
                        apply_median_filtering
color.palette           Helper function allowing greater control over
                        the steps in a color palette.
filterHighPNormals      filterHighPNormals: Filter the HMM identified
                        CNV's by the CNV's posterior probability of
                        belonging to a normal state.
inferCNVBayesNet        inferCNVBayesNet: Run Bayesian Network Mixture
                        Model To Obtain Posterior Probabilities For HMM
                        Predicted States
infercnv-class          The infercnv Class
infercnv-package        infercnv: Infer Copy Number Variation from
                        Single-Cell RNA-Seq Data
infercnv_annots_example
                        Generated classification for 10 normal cells
                        and 10 tumor cells.
infercnv_data_example   Generated SmartSeq2 expression data with 10
                        normal cells and 10 tumor cells. This is only
                        to demonstrate how to use methods, not actual
                        data to be used in an analysis.
infercnv_genes_example
                        Downsampled gene coordinates file from GrCh37
infercnv_object_example
                        infercnv object result of the processing of
                        run() in the example, to be used for other
                        examples.
mcmc_obj                infercnv object result of the processing of
                        inferCNVBayesNet in the example, to be used for
                        other examples.
plot_cnv                Plot the matrix as a heatmap, with cells as
                        rows and genes as columns, ordered according to
                        chromosome
plot_per_group          plot_per_group
plot_subclusters        Plot a heatmap of the data in the infercnv
                        object with the subclusters being displayed as
                        annotations.
run                     run() : Invokes a routine inferCNV analysis to
                        Infer CNV changes given a matrix of RNASeq
                        counts.
sample_object           sample_object
validate_infercnv_obj   validate_infercnv_obj()
