Re: [gmod-cmap] [Gmod-help] synteny

[Scott C. <sc...@sc...>]

Hi Scott,

This is a good example of why you should always keep responses on the
list, because I don't know the answer.  Hopefully Ken will chime in.

Scott


On Tue, Jan 26, 2010 at 1:07 PM, Scott Harding <the...@gm...> wrote:
> Hi Scott,
>
>      Thanks a lot. I have attached a file that I was able to generate using
> cmap. I am not sure how to configure the conf file to enable block shading.
> Can you guide me to the information where I can find information?
>
> Thanks
> Scott
>
>
>
>
> On Tue, Jan 26, 2010 at 12:51 PM, Scott Cain <sc...@sc...> wrote:
>>
>> Hi Scott,
>>
>> With CMap, you can certainly get close.  For example, the attached
>> image shows synteny between a rice chromosome and a sorghum
>> chromosome.  The image is pretty "noisy", but that is because all of
>> the data about relationships between the two chromosomes are included.
>>  The person who supplied the data could have decided to limit the
>> number of correspondences to very few and resulted in a cleaner
>> picture.
>>
>> Scott
>>
>>
>> On Tue, Jan 26, 2010 at 11:41 AM, Scott Harding <the...@gm...>
>> wrote:
>> >
>> >
>> > Hi
>> >
>> >         I was wondering if it is possible to produce images (with huge
>> > blocks of synteny) as shown in the attached image.
>> >
>> > Thanks
>> >
>> > Scott
>> >
>> >
>>
>>
>>
>> --
>> ------------------------------------------------------------------------
>> Scott Cain, Ph. D.                                   scott at scottcain
>> dot net
>> GMOD Coordinator (http://gmod.org/)                     216-392-3087
>> Ontario Institute for Cancer Research
>
>



-- 
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   scott at scottcain dot net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research