Question: GBS paired reads splits it into several smaller files based on barcode matching
2
gravatar for nakanomasayuki265
2.7 years ago by
nakanomasayuki26560 wrote:

I wanted to split demultiplexed paired-end Fastq files into individual data based on barcode matching. I know that single-end reads could be divided using FASTX-Toolkit, but not paired-end reads. Please tell me how to split demultiplexed paired-end Fastq files. Only R1 reads contain the barcode.

sequencing next-gen • 1.1k views
ADD COMMENTlink modified 9 months ago by Corentin430 • written 2.7 years ago by nakanomasayuki26560
1

did you try GBSX tool? nakanomasayuki265

ADD REPLYlink modified 9 months ago • written 9 months ago by cpad011212k
1
gravatar for rimgubaev
9 months ago by
rimgubaev140
Russia/Moscow/Skoltech
rimgubaev140 wrote:

Actually, I am dealing with the same problem, can't find a proper solution. I found this package but didn't try it yet: https://sourceforge.net/projects/gbsbarcode/files/

ADD COMMENTlink written 9 months ago by rimgubaev140
1
gravatar for Corentin
9 months ago by
Corentin430
Corentin430 wrote:

I used this tool before to split GBS reads: https://sourceforge.net/projects/gbsbarcode/

It support paired end reads

ADD COMMENTlink written 9 months ago by Corentin430
0
gravatar for rimgubaev
9 months ago by
rimgubaev140
Russia/Moscow/Skoltech
rimgubaev140 wrote:

Tried this tool: https://github.com/kdmurray91/axe Works fine!

ADD COMMENTlink written 9 months ago by rimgubaev140
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