anndataR/man/from_Seurat.Rd at 084a1878c733f0cd7a680bef6a8c52bf1b0f0844 · scverse/anndataR · GitHub

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% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/from_Seurat.R
\name{from_Seurat}
\alias{from_Seurat}
\title{Convert a Seurat object to an AnnData object}
\usage{
from_Seurat(
  seurat_obj,
  assay_name = NULL,
  x_mapping = NULL,
  layers_mapping = TRUE,
  obs_mapping = TRUE,
  var_mapping = TRUE,
  obsm_mapping = TRUE,
  varm_mapping = TRUE,
  obsp_mapping = TRUE,
  varp_mapping = TRUE,
  uns_mapping = TRUE,
  output_class = c("InMemory", "HDF5AnnData"),
  ...
)
}
\arguments{
\item{seurat_obj}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{assay_name}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{x_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{layers_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{obs_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{var_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{obsm_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{varm_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{obsp_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{varp_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{uns_mapping}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{output_class}{See \code{\link[=as_AnnData]{as_AnnData()}}}

\item{...}{See \code{\link[=as_AnnData]{as_AnnData()}}}
}
\value{
An \code{AnnData} object
}
\description{
\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}}

This function is deprecated, use \code{\link[=as_AnnData]{as_AnnData()}} instead
}