measured_category {MatrixQCvis} | R Documentation

## Obtain the number of measured intensities per sample type

### Description

The function 'measured_category' creates a 'tbl' with the number of measured values per feature. 0 means that there were only missing values ('NA') for the feature and sample type. 'measured_category' will return a 'tbl' where columns are the unique sample types and rows are the features as in 'assay(se)'.

### Usage

    measured_category(se, measured = TRUE, category = "type")

### Arguments

`se` | 'SummarizedExperiment'
`measured` | 'logical', should the measured values ('measured = TRUE') or missing values ('measured = FALSE') be taken
`category` | 'character', corresponds to a column name in 'colData(se)'

### Details

'measured_category' is a helper function.

### Value

'tbl' with number of measured/mising features per 'category' type

### Examples

    ## create se
    set.seed(1)
    a <- matrix(rnorm(100), nrow = 10, ncol = 10,
                dimnames = list(1:10, paste("sample", 1:10)))
    a[c(1, 5, 8), 1:5] <- NA
    cD <- data.frame(name = colnames(a), type = c(rep("1", 5), rep("2", 5)))
    rD <- data.frame(spectra = rownames(a))
    se <- SummarizedExperiment::SummarizedExperiment(assay = a,
        rowData = rD, colData = cD)

    measured_category(se, measured = TRUE, category = "type")

[Package MatrixQCvis version 1.0.0 Index]