Hi Peter,

Thank you for your fast answer.

I just want to know how can I use output files from Barcode splitter to use
them into Bowtie for Illumina because I can´t see any tool to convert FASTA
to FASTAQ. How can I continue with the mapping using the files from Barcode


From:  Peter Cock <p.j.a.c...@googlemail.com>
Date:  Wednesday, April 3, 2013 4:42 PM
To:  Gema Sanz Santos <ge2sa...@gmail.com>
Cc:  <galaxy-user@lists.bx.psu.edu>
Subject:  Re: [galaxy-user] Change format with "edit attributes"

On Wed, Apr 3, 2013 at 3:40 PM, Gema Sanz Santos <ge2sa...@gmail.com> wrote:
> Hello,
> I'm trying to change the format to the output files from Barcode splitter from
> FASTA to FASTAQ so I can use them in Bowtie for Illumina. I've read that it
> can be done through the edit attributes, I go to datatype and select fastaq,
> save and then go to convert format and press convert but the resulting file is
> 0 bytes and is not recognized by Bowtie.
> I´ve also tried to upload by copying the link and selecting fastaq as format
> but in this case, I got the file shown in the picture and it is not recognized
> by Bowtie again.
> What can I do?? I don´t know how to continue because I´m not able to change
> the format to fastaq!
> Thank you very much for your help in advance
> Best,
> Gema

Hi Gema,

There seem to be several factors confusing you here.

The screenshot shows FASTA data wrongly labelled as FASTQ.

The Galaxy "edit attributes" does NOT actually edit the data. There are
separate tools which can convert from one format to another, which gives you
a new entry in the history (another green box on the right).

You can convert from FASTQ to FASTA, but doing the opposite is not possible
without inventing quality scores (e.g. give everything score 30).

Does that help?


<<inline: Screen Shot 2013-04-03 at 4.37.50 PM.png>>

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