--- a +++ b/man/importXenium.Rd @@ -0,0 +1,52 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/import.R +\name{importXenium} +\alias{importXenium} +\title{importXenium} +\usage{ +importXenium( + dir.path, + selected_assay = "Gene Expression", + assay_name = "Xenium", + sample_name = NULL, + use_image = TRUE, + morphology_image = "morphology_lowres.tif", + resolution_level = 7, + overwrite_resolution = FALSE, + image_name = "main", + channel_name = "DAPI", + import_molecules = FALSE, + verbose = TRUE, + ... +) +} +\arguments{ +\item{dir.path}{path to Xenium output folder} + +\item{selected_assay}{selected assay from Xenium} + +\item{assay_name}{the assay name of the SR object} + +\item{sample_name}{the name of the sample} + +\item{use_image}{if TRUE, the DAPI image will be used.} + +\item{morphology_image}{the name of the lowred morphology image. Default: morphology_lowres.tif} + +\item{resolution_level}{the level of resolution within Xenium OME-TIFF image, see \link{generateXeniumImage}. Default: 7 (553x402)} + +\item{overwrite_resolution}{if TRUE, the image "file.name" will be generated again although it exists at "dir.path"} + +\item{image_name}{the image name of the Xenium assay, Default: main} + +\item{channel_name}{the channel name of the image of the Xenium assay, Default: DAPI} + +\item{import_molecules}{if TRUE, molecule assay will be created along with cell assay.} + +\item{verbose}{verbose} + +\item{...}{additional parameters passed to \link{formVoltRon}} +} +\description{ +Importing Xenium data +}