Hi Community,
I have run Guppy on naopore reads for the basecalling and generated a final merged fastq file. Next, for demultiplexing I have seen a couple of option available, such as Porechop, Last and qcat. Can anyone suggest me from their earlier experience which tool I should use for demultiplexing of the basecalled fastq reads? As an input data i have the a .fastq file and one fasta file with all the barcode.
JC
•
written
by
jeccy.J
2 answers
I think the generally accepted and most up to date tool to use is
guppy_barcoder
from ONT
Usage is quite easy (it runs on fastq files output by guppy, not on FAST5 files).
https://github.com/rrwick/Porechop#barcode-demultiplexing
Scroll down at the link above. Looks like you need to edit adapters.py script and add them if you use custom barcodes.
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