Question: GBS paired reads splits it into several smaller files based on barcode matching
2
gravatar for nakanomasayuki265
2.0 years ago by
nakanomasayuki26550 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 • 737 views
ADD COMMENTlink modified 28 days ago by Corentin260 • written 2.0 years ago by nakanomasayuki26550
1

did you try GBSX tool? nakanomasayuki265

ADD REPLYlink modified 28 days ago • written 28 days ago by cpad011211k
1
gravatar for rimgubaev
28 days ago by
rimgubaev80
rimgubaev80 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 28 days ago by rimgubaev80
1
gravatar for Corentin
28 days ago by
Corentin260
Corentin260 wrote:

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

It support paired end reads

ADD COMMENTlink written 28 days ago by Corentin260
0
gravatar for rimgubaev
28 days ago by
rimgubaev80
rimgubaev80 wrote:

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

ADD COMMENTlink written 28 days ago by rimgubaev80
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