R: Aggregate features over multiple assays

aggregateFeaturesOverAssays {scp}

R Documentation

Aggregate features over multiple assays

Description

This function is a wrapper function around QFeatures::aggregateFeatures. It allows the user to provide multiple assays for which aggregateFeatures will be applied sequentially.

Usage

aggregateFeaturesOverAssays(obj, i, fcol, name, fun, ...)

Arguments

`obj`	A `QFeatures` object
`i`	A `numeric(1)` or `character(1)` indicating which assay to transfer the `colData` to.
`fcol`	The feature variables for each assays `i` defining how to summarise the QFeatures. If `fcol` has length 1, the variable name is assumed to be the same for all assays
`name`	A `character()` naming the new assay. `name` must have the same length as `i`. Note that the function will fail if of the names in `name` is already present.
`fun`	A function used for quantitative feature aggregation.
`...`	Additional parameters passed the `fun`.

Value

A QFeatures object

Examples

data("scp1")
scp1 <- aggregateFeaturesOverAssays(scp1, 
                                    i = 1:3,
                                    fcol = "peptide",
                                    name = paste0("peptides", 1:3),
                                    fun = colMeans,
                                    na.rm = TRUE)
scp1