calculate_features: Calculate and merge features for a list of CF-MS matrices

In fosterlab/CFTK: The Co-Fractionation Toolkit

Description

Score each protein pair in a series of CF-MS experiments, using a measure of association of choice, then merge the calculated features into a single data frame that contains scores for each pair across all of the input experiments. This data frame can then be provided to a classifier as input, alongside a set of 'gold-standard' interacting pairs, in order to score interactions in a manner that integrates data from multiple CF-MS replicates. Note that the final data frame may contain missing values; to replace them, use the impute_missing_features function.

Usage

calculate_features(mats, metric = metrics())

Arguments

mats	a list of CF-MS matrices, with proteins in rows and fractions in columns
metric	the measure of association to use in scoring protein pairs

Value

a data frame containing features for all protein pairs across all replicates

fosterlab/CFTK documentation built on Jan. 19, 2021, 10:31 p.m.