Tool:Mr_Demuxy: A Demultiplexer for Combinatorially Multiplexed Next Generation Reads

Question

[Cornel]

I've been looking (including here on this site) for a tool for demultiplexing data with dual-index NGS data and I found this tool:

https://github.com/lefeverde/Mr_Demuxy

I use it after bcl2fastq, like this:

pe_demuxer.py -o output_dir \
    -r1 data_R1.fastq \
    -r2 data_R2.fastq \
    -r1_bc bc-fwd.tsv \
    -r2_bc bc-rev.tsv

The git page is pretty explanatory

It works pretty well for our metagenomics data (not a lot of data)

I hope it helps..

Note: this was not written by me

[GenoMax]

demultiplexing data with dual-index NGS data

There are other tools that demux this type of data. deML (https://github.com/grenaud/deML) , sabre ( https://github.com/najoshi/sabre ) are two that come to mind.

Based on a quick read of one you posted it appears to allow for variable length indexes. If you are using standard illumina indexing how you would end up with variable length index reads is something I wonder.

Note: You should add a disclaimer that you are not the developer of this tool. Generally tool posts on biostars are from the developers themselves.