Hello Jianguang,

Given this information, you will not need to run FASTQ Groomer, but simply proceed with Fastqc and FASTQ Trimmer.


Best,

Jen
Galaxy team

On 8/14/12 11:12 AM, Du, Jianguang wrote:
Dear All,

I have some FASTQ datasets in phred 33 offset, and I have already
assinged them Fastqsanger format. Do I need to run FASTQ Groomer on
these datasets before I check the data quality by "Fastqc: Fastqc QC"
and "FASTQ Trimmer by column" to remove bad nucleotides at 3' end of reads?

Should I select "Sanger" as "Input FASTQ quality scores type:" if I need
to run Groomer?

Thanks.

Jianguang Du



___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

   http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

   http://lists.bx.psu.edu/


--
Jennifer Jackson
http://galaxyproject.org
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

 http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

 http://lists.bx.psu.edu/

Reply via email to