plot_accessibility_in_pseudotime {cicero} | R Documentation

## Plot accessibility by pseudotime

### Description

Make a barplot of chromatin accessibility across pseudotime

### Usage

    plot_accessibility_in_pseudotime(cds_subset, breaks = 10)

### Arguments

`cds_subset` | Subset of the CDS object you want to plot. The CDS must have a column in the pData table called "Pseudotime".
`breaks` | Number of breaks along pseudotime. Controls the coarseness of the plot.

### Details

This function plots each site in the CDS subset by cell pseudotime as a barplot. Cells are divided into bins by pseudotime (number determined by `breaks`) and the percent of cells in each bin that are accessible is represented by bar height. In addition, the black line represents the pseudotime-dependent average accessibility from a smoothed binomial regression.

### Value

ggplot object

### Examples

    ## Not run:
    plot_accessibility_in_pseudotime(input_cds_lin[c("chr18_38156577_38158261",
                                                     "chr18_48373358_48374180",
                                                     "chr18_60457956_60459080")])

    ## End(Not run)

[Package cicero version 1.5.5 Index]