[Bioperl-l] Sequence Character Visualization

Chris Fields cjfields at illinois.edu
Tue Feb 17 08:29:14 EST 2009


I suggest the Bio::Graphics HOWTO for the graphics part,  
Bio::Graphics::glyph::dna for the DNA part (if you actually want to  
see the DNA).   Note that Bio::Graphics is no longer in bioperl core  
but is on CPAN.

chris

On Feb 17, 2009, at 6:42 AM, Mark A. Jensen wrote:

> Hi Shafeeq-
> Check out http://www.bioperl.org/wiki/Simple_graphical_alignment_overview 
>  - might be what you're looking for-
> Mark
> ----- Original Message ----- From: "shafeeq rim" <hsa_rim at yahoo.co.in>
> To: <bioperl-l at lists.open-bio.org>
> Sent: Tuesday, February 17, 2009 4:30 AM
> Subject: [Bioperl-l] Sequence Character Visualization
>
>
>> Hi guys,
>>
>> I want to just visualize a sequence in horizontal manner reading  
>> from a genome fasta file / genbank file as per the given genomic  
>> location..
>>
>> Suppose I want to visualize a sequence string from 1000 - 1100  
>> nucleotides in horizontal string like manner in terms of an image.
>> Is there any such tool or library that can do it for me... I am not  
>> looking for alignments but just linear visualization.
>>
>> Thanks
>>
>>
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