swh:1:snp:0da231f3ffdb3226650880f1b61d5d5cdcbd749b
Tip revision: 656fc8b562d53e5d0cedda9e09d9dda81e8c00e9 authored by David Collins on 29 February 2024, 13:44:33 UTC
Merge pull request #8550 from satijalab/develop
Merge pull request #8550 from satijalab/develop
Tip revision: 656fc8b
LoadSTARmap.Rd
% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/preprocessing.R
\name{LoadSTARmap}
\alias{LoadSTARmap}
\title{Load STARmap data}
\usage{
LoadSTARmap(
data.dir,
counts.file = "cell_barcode_count.csv",
gene.file = "genes.csv",
qhull.file = "qhulls.tsv",
centroid.file = "centroids.tsv",
assay = "Spatial",
image = "image"
)
}
\arguments{
\item{data.dir}{location of data directory that contains the counts matrix,
gene name, qhull, and centroid files.}
\item{counts.file}{name of file containing the counts matrix (csv)}
\item{gene.file}{name of file containing the gene names (csv)}
\item{qhull.file}{name of file containing the hull coordinates (tsv)}
\item{centroid.file}{name of file containing the centroid positions (tsv)}
\item{assay}{Name of assay to associate spatial data to}
\item{image}{Name of "image" object storing spatial coordinates}
}
\value{
A \code{\link{Seurat}} object
}
\description{
Load STARmap data
}
\seealso{
\code{\link{STARmap}}
}
\concept{preprocessing}