plot_gex_bivariate_qc: Scatterplot of two features of interest from colData with...

In keshav-motwani/scanalysis: Multi-Sample Visualization and Immune Repertoire Analysis Utilities for Single-Cell Data

Description

Scatterplot of two features of interest from colData with annotated thresholds and counts based on filters

Usage

plot_gex_bivariate_qc(
  sce_list,
  x,
  y,
  color = NULL,
  shape = NULL,
  x_filters = NULL,
  y_filters = NULL,
  x_log = TRUE,
  y_log = TRUE,
  alpha = 1,
  text_size = 3,
  point_size = 0.5,
  facet_rows = NULL,
  facet_columns = NULL,
  facet_type = "grid",
  ...
)

Arguments

sce_list	list of SingleCellExperiment object
x	numeric column from colData that is in all objects in sce_list
y	numeric column from colData that is in all objects in sce_list
color	column from colData that is in all objects in sce_list
shape	column from colData that is in all objects in sce_list
x_filters	list of filters for each SCE object in sce_list from scater::isOutlier, or a vector with attribute named thresholds that is a vector with min and max allowed values
y_filters	list of filters for each SCE object in sce_list from scater::isOutlier, or a vector with attribute named thresholds that is a vector with min and max allowed values
x_log	whether to use log x-axis
y_log	whether to use log y-axis
text_size	font size for annotations
facet_rows	columns to facet on
facet_columns	columns to facet on
facet_type	either "wrap" or "grid", same as ggplot
...	other params passed into either facet_wrap or facet_grid, depending on facet_type parameter

Examples

NULL

keshav-motwani/scanalysis documentation built on Feb. 4, 2021, 2:21 a.m.