getSummaryFromBatch: Function to summarise distance-from-germline and CSR events...

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

Function to summarise distance-from-germline and CSR events from batch lineage analysis

Description

This function processes the output from doBatchCloneAnalysis and merge entries representing individual lineage trees into two data frames, one containing distance-from-germline of all sequences in all lineages, and the other containing CSR events identified in all lineages.

Usage

getSummaryFromBatch(batchOutput)

Arguments

batchOutput

list, output from doBatchCloneAnalysis.

Value

A list with two elements:

distances

data.frame with the distance-from-germline calculated from any sequences in all the lineage trees included in the input.

csr_events

data.frame listing all class-switching events across all the lineages include in the input, and an estimate distance-from-germline at which such event takes place.

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