plotRarefactionCurve: Plot rarefication and extrapolation curves for samples

In elulu3/LymphoSeqTest: Analyze high-throughput sequencing of T and B cell receptors

Plot rarefication and extrapolation curves for samples

Description

Given a study table, for each sample plot rarefaction curves to estimate repertoire diversity. The method used to generate the rarefaction curve is derived from Chao et al., (2014) using the iNEXT library

Usage

plotRarefactionCurve(study_table)

Arguments

study_table

A tibble consisting antigen receptor sequencing data imported by the LymphoSeq function readImmunoSeq. "aminoAcid", "count", and "frequencyCount" are required columns.

Examples

file_path <- system.file("extdata", "TCRB_sequencing", package = "LymphoSeq2")
stable <- readImmunoSeq(path = file_path)

elulu3/LymphoSeqTest documentation built on Aug. 27, 2022, 5:47 a.m.