genePattern

State transition pattern of each gene

Usage

genePattern(data)

Arguments

data

a single cell expression matrix or data.frame with rows as genes and columns as cells. Cells should follow the order of pseudo time

Value

A dataframe of state transtion pattern

Details

#' @title PreprocessPseudotime #' @description Pseudotimecascade Preprocess #' @details This function generates a table that performs Pseudotimecascade #' @param data a single cell expression matrix or data.frame with rows as genes and columns as cells. Cells should follow the order of pseudo time #' @param gl marked gene list #' @return A Heatmap-class object #' @export PreprocessPseudotime PreprocessPseudotime <- function(data, gl) gene_group <- genePattern(data) plotdata <- data[rownames(gene_group), ] p <- PseudotimeHeatmap(plotdata, gl, as.matrix(gene_group)[, "pattern"]) return(p)

This function generates the state transition pattern of input gene

Author

Zhicheng Ji, Changxin Wan, Beijie Ji