remove_peaks {pmp} | R Documentation

## Remove features from peak intensity matrix

### Description

Filter to remove features.

### Usage

    remove_peaks(df, rem_index)

### Arguments

`df` | A matrix-like (e.g. an ordinary matrix, a data frame) or RangedSummarizedExperiment-class object with all values of class `numeric()` or `integer()` of peak intensities, areas or other quantitative characteristic.
`rem_index` | `logical()`, vector containing `TRUE` vales for features to remove. Should be the same length as number of features in input data.

### Value

Object of class `SummarizedExperiment`. If input data are a matrix-like (e.g. an ordinary matrix, a data frame) object, function returns the same R data structure as input with all value of data type `numeric()`.

### Examples

    df <- MTBLS79[ ,MTBLS79$Batch == 1]
    rem_index <- vector(mode="logical",
        length=nrow(SummarizedExperiment::assay(df)))
    rem_index[c(1, 20, 456, 789)] <- TRUE
    out <- remove_peaks(df=df, rem_index=rem_index)

[Package pmp version 1.0.0 Index]