% Generated by roxygen2: do not edit by hand

% Please edit documentation in R/scAI_model.R

\name{getEmbeddings}

\alias{getEmbeddings}

\title{compute the 2D coordinates of embeded cells, genes, loci and factors using VscAI visualization}

\usage{

getEmbeddings(object, genes.embed = NULL, loci.embed = NULL,

  alpha.embed = 1.9, snn.embed = 5)

}

\arguments{

\item{object}{scAI object}

\item{genes.embed}{A vector of genes to be embedded}

\item{loci.embed}{A vector of loci to be embedded}

\item{alpha.embed}{Parameter controlling the distance between the cells and the factors}

\item{snn.embed}{Number of neighbors}

}

\description{

compute the 2D coordinates of embeded cells, genes, loci and factors using VscAI visualization

}