B cell repertoire analysis pipeline with immcantation framework.


The typical command for running the pipeline is as follows:

nextflow run nf-core/bcellmagic --reads '*_R{1,2}.fastq.gz' -profile standard,docker

Mandatory arguments:
  --cprimers                    Path to CPrimers FASTA File
  --vprimers                    Path to VPrimers FASTA File
  --metadata                    Path to Metadata TSV
  --umi_length                  Length of UMI barco

This is a companion discussion topic for the original entry at