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plot_umap_colored_features.Rd
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% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/plot_umap_colored_features.R
\name{plot_umap_colored_features}
\alias{plot_umap_colored_features}
\title{UMAP Visualization colored by features}
\usage{
plot_umap_colored_features(
Seu_obj = NULL,
scMuffinList = NULL,
feature_name = NULL,
scale_feature = FALSE,
adj_outliers = FALSE,
min_cells = 10,
out_dir = "./",
width = 180,
height = 180,
units = "mm",
res = 300,
...
)
}
\arguments{
\item{Seu_obj}{Seurat object with UMAP data}
\item{scMuffinList}{scMuffinList object}
\item{feature_name}{feature name}
\item{scale_feature}{whether to scale feature values}
\item{adj_outliers}{logical, whether to adjust the feature scores, removing outliers}
\item{min_cells}{minimum number of cells in which the feature must have a non-zero value}
\item{out_dir}{output directory}
\item{width}{image width}
\item{height}{image height}
\item{units}{image units}
\item{res}{image resolution}
\item{...}{further arguments to plot_umap}
}
\description{
Generate UMAP visualizations for all the columns in the "summary" element of a feature available in scMuffinList. For every column a png file is saved in out_dir. It requires a Seurat object with UMAP information.
}