ImportVDJ: ImportVDJ -Deprecated -

In theMILOlab/SPATAImmune: What the Package Does (One Line, Title Case)

ImportVDJ -Deprecated -

Description

This function import the VDJ data from the SPTCR-Pipline or IgBlast

Usage

ImportVDJ(
  object,
  barcodes.df,
  IgBlast.df,
  Pychoper = F,
  Filter.cdr3 = T,
  ram = 8,
  cors = 16
)

Arguments

object	The data frame with barcodes and the ReArrangment parameters
barcodes.df	Data frame of the barcodes, with the following cols: c("ID", "barcodes"): ID: Sequencing ID, barcodes: The annotated Barcode
IgBlast.df	Optimized IgBlast output with the following cols: c("ID", "c", "v", "d", "j", "CDR3"). ID: Sequencing ID, c: Constant Region, v,d,j calls, and the CDR3 sequence
Pychoper	If the Pychopper option was used before IgBlast (in the pipline)

Value

SPATA object

Author(s)

Dieter Henrik Heiland

theMILOlab/SPATAImmune documentation built on Nov. 22, 2022, 6:29 p.m.