threshold: Threshold

In dunbarlabNIH/barcodetrackR: Functions for Analyzing Cellular Barcoding Data

Description

This is a helper which function takes in sequence data in table form, along with a threshold, to each column (e.g. if threshold is set as 0.0005, only rows in which an element is above 0.05 its column will be kept).

Usage

threshold(your_data, thresh = 5e-04, thresh_type = "relative")

Arguments

your_data	A data frame. Usually individual barcodes in rows and samples in columns.
thresh	Numeric.
thresh_type	Character. One of "relative" or "absolute"

Value

A data frame where all rows (barcodes) that did not have at least one element meet the threshold have been discarded.

Examples

data(wu_subset)
threshold(SummarizedExperiment::assay(wu_subset, assay = "counts"),
    thresh = 0.0005
)

dunbarlabNIH/barcodetrackR documentation built on April 26, 2021, 6:20 p.m.