getCSEvents: Function to parse class-switching events from arborescence...

In Fraternalilab/BrepPhylo: BrepPhylo: R package for phylogenetic analysis of B cell repertoire

Function to parse class-switching events from arborescence tree analysis

Description

This function parses edges in the arborescence tree that switches isotype/subisotype, and offer a distance-from-germline estimate of this switching event, as the mean distance-from-germline of the two ends of each of such edge.

Usage

getCSEvents(
  clone,
  columnSeqID,
  columnSubclass,
  dfArborescence,
  germline,
  path_stats
)

Arguments

clone	data.frame of clone information.
columnSeqID	column name holding Sequence IDs.
columnSubclass	column name holding subclasses information.
dfArborescence	data.frame of arborescence tree edge list.
germline	Root ID for germline.
path_stats	data.frame of distances from germline calculated for the arborescence tree.

Value

A data.frame.

Fraternalilab/BrepPhylo documentation built on Jan. 3, 2025, 10:03 a.m.