Re: [maq-help] MAQ - viewing pileup output graphically

[Heng Li <lh...@gm...>]

Dear Naveed,

I think you can try maqview (http://maq.sourceforge.net/ 
maqview.shtml) to see the read alignment. It is nothing fancy like  
Consed or GAP4, but maybe it is still helpful in some cases. I know  
it is able to work with alignments on the human genome.

I am not sure whether this is what you intend. Hope it helps.

Cheers,

Heng

On 27 Nov 2007, at 12:15, Naveed Ishaque (TSL) wrote:

> Hi!
>
>
>
> I am currently working on aligning Solexa reads against a fungal  
> genome in order to identify SNPs and genome assembly quality.
>
>
>
> Would you be able to recommend and programs for which I can use or  
> manipulate the output from pileup to be displayed graphically for  
> easier manual analysis of coverage?
>
>
>
> Kind Regards,
>
>
>
> Nav
>
>
>
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