nanoplexer

Introduction

nanoplexer is a standard tool to demultiplex Nanopore long read sequencing data. It extracts front and rear 150bp sequences to align aginst barcode sequences and identify the best hit. To install nanoplexer,

git clone https://github.com/hanyue36/nanoplexer.git
cd nanoplexer && make

The only library dependency is zlib

Install with conda

conda install -c bioconda nanoplexer

Usage examples

• demultiplex data according to barcode file

./nanoplexer -b barcode.fa -p output_path -t 8 input.fastq

• demultiplex data and output alignment information

./nanoplexer -b barcode.fa -p output_path -l log input.fastq

• demultiplex data from stdin stream

cat sequence_id*.fastq | ./nanoplexer -b barcode.fa -p output_path -

• demultiplex data according to dual barcode file

./nanoplexer -b barcode.fa -d dual_barcode_pair.txt -p output_path input.fastq

FAQ

• Format for dual barcode pair file
  Tab-delimited for each line: output file name, 5' barcode name, 3' barcode name

Getting Help

Please use the Issues page if you have questions. You may also directly contact Yue Han at hanyue89tj@gmail.com.