cytof_clusterStat {cytofkit} | R Documentation

## Statistics of the cluster results

### Description

Calculate the mean or median expression level of each marker for each cluster, or percentage of cell numbers of each cluster for each sample.

### Usage

    cytof_clusterStat(data, markers, cluster = "cluster", sample,
      statMethod = c("mean", "median", "percentage", "NULL"))

### Arguments

`data` | Input data frame.
`markers` | The names of markers used for calcualtion.
`cluster` | The column name contatining cluster labels.
`sample` | The samples used for calculation.
`statMethod` | Statistics containing mean, median or percentage.

### Value

A matrix of the statistics results

### Examples

    m1 <- c(rnorm(300, 10, 2), rnorm(400, 4, 2), rnorm(300, 7))
    m2 <- c(rnorm(300, 4), rnorm(400, 16), rnorm(300, 10, 3))
    m3 <- c(rnorm(300, 16), rnorm(400, 40, 3), rnorm(300, 10))
    m4 <- c(rnorm(300, 7, 3), rnorm(400, 30, 2), rnorm(300, 10))
    m5 <- c(rnorm(300, 27), rnorm(400, 40, 1),rnorm(300, 10))
    c <- c(rep(1,300), rep(2,400), rep(3,300))
    rnames <- paste(paste('sample_', c('A','B','C','D'), sep = ''),
    rep(1:250,each = 4), sep='_')
    exprs_cluster <- data.frame(cluster = c, m1 = m1, m2 = m2, m3 = m3, m4 = m4, m5 = m5)
    row.names(exprs_cluster) <- rnames
    cytof_clusterStat(data = exprs_cluster, cluster = "cluster", statMethod = "mean")

[Package cytofkit version 1.12.0 Index]