scHOT_buildFromMatrix {scHOT} | R Documentation

## scHOT_buildFromMatrix

### Description

Create scHOT object from a matrix

### Usage

    scHOT_buildFromMatrix(
      mat,
      cellData = NULL,
      positionType = NULL,
      positionColData = NULL
    )

### Arguments

`mat` | A matrix with rows for genes and columns for cells
`cellData` | A dataframe or DataFrame object with rows for cells
`positionType` | A string indicating the position type, either "trajectory" or "spatial"
`positionColData` | Strings indicate the position information stored in colData. If positionType is "trajectory" then positionColData should be a sortable vector if positionType is "spatial" then positionColData should be a matrix type object.

### Value

A scHOT object

### Examples

    dat <- rbind(rnorm(50), rnorm(50), rnorm(50))
    colnames(dat) <- paste0("cell_", 1:ncol(dat))
    rownames(dat) <- c("gene_1","gene_2", "gene_2")

    scHOT <- scHOT_buildFromMatrix(dat, cellData = data.frame(1:ncol(dat)))

[Package scHOT version 1.0.0 Index]