shell script to demultiplex paired end barcodes in illumina data
VERSION: 0.0.1 DATE: 1/20/2020
This folder should include:
- README (this file)
- demux2 (shell script that works the whole thing)
- test_barcode.csv (example barcode-id map)
- test_R1.fastq.gz test_R2.fastq.gz (example reads)
To run the analysis for exact matches you just need to run this command:
./demux2 test_R1.fastq.gz test_R2.fastq.gz test_barcode.csv
You should get a new directory installed in this folder called "fastq" containing the compressed demultiplexed reads.