Hi,

The report was obtained after running fastqc on my data. However after looking at the report statistics, the
Quality is not good in the Per Base Sequence Quality and there is a difference between the mean and median at each cycle. How can the quality be improved? And why is there a difference between the mean and median in the fastqc report at each cycle?


Benjy







From:

Benjamin Osei-agyeman ;


To:

Ido Tamir ;


Cc:

;


Subject:

Re: [galaxy-user] Quality report


Sent:

Wed, Nov 6, 2013 5:31:22 PM




The report was obtained after running fastqc on my data, I found out that the quality of the report is not good and that the mean and median are different at each cycle. Please how can the difference between the mean and median be improved as well as improving the overall quality







From:

Ido Tamir ;


To:

Benjamin Osei-agyeman ;


Cc:

;


Subject:

Re: [galaxy-user] Quality report


Sent:

Wed, Nov 6, 2013 4:38:15 PM




Please be more specific about which quality of what gets reported.
Why do you think its important to reduce the difference between mean and median?

best,
ido

On Nov 6, 2013, at 4:50 PM, Benjamin Osei-agyeman wrote:

> Hi,
> After obtaining a quality report in galaxy I found out that there is a difference between the mean and median at each cycle. How can this difference be reduced using galaxy?
>
> Thanks in advance
> Benjy
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