QC_barplot: Plot features as barplot

In LabexCortexBioinformatics/LxCxUtils: Utils Function for Labex Cortex Bioinformatics Platform

Plot features as barplot

Description

Does the same as Violin or Box plots, but as an histogram.

Usage

QC_barplot(
  seur,
  features,
  group.by = "orig.ident",
  cols = NULL,
  wrap = FALSE,
  assay = "RNA",
  slot = "data",
  bins = 100,
  ncol = 2
)

Arguments

seur	Seurat object to fetch data from.
features	Features to use. Use nFeature_RNA, nCount_RNA, percent.mt or percent.ribo for QCs.
group.by	Which variable to group by. Default to "orig.ident"
cols	Which colors to use. NULL will use hue_pal. Default to NULL
wrap	Whether or not to use the facet_wrap from ggplot on the group.by groups. Default to FALSE
assay	Which assay to get data from, if features are genes. Default to "RNA"
slot	Which slot in the assay to get data from, if features are genes. Default to "data"
bins	Number of bins to use. A high number will have better precision. Default to 100
ncol	Number of column if several features. Default to 2

Value

A gridExtra object if several features, or a ggplot object if only one feature.

LabexCortexBioinformatics/LxCxUtils documentation built on Aug. 2, 2022, 6:23 a.m.