[Bioperl-l] xyplot howto?

Scott Cain cain.cshl at gmail.com
Mon Oct 13 11:04:20 EDT 2008


Hello Vesko,

Have you looked at the tutorial that covers creating xy/histogram
plots?  You can either look at your local version of it, at

  http://localhost/gbrowse/tutorial/tutorial.html#graph

or the version on gmod.org:

  http://gmod.org/gbrowse-cgi/tutorial/tutorial.html#graph

Scott

On Sun, Oct 12, 2008 at 4:44 PM, Vesselin Baev <vebaev at gmail.com> wrote:
> Dear All,
> I have a file containing methylation profile in GFF format such:
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      1       24      1.5240512e-01   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      25      59      1.4491698e-01   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      60      112     8.0595555e-02   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      113     153     6.0091032e-02   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      154     184     4.9909350e-02   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      185     218     5.7258270e-01   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
> Chr1    ATIDB   mCIP_col_BU_UB_methylation      219     253     6.7766268e-01   .       .       Name="methylation
> Chr1:mCIP_col_BU_UB"
>
> what type of code to apply to display just an image-histogram for a
> desired region (3 and 4 columns coordinates)?
>
>
>
> Vesko
>
> --
> ------------------------------------------------
> Dr. Vesselin Baev
> Research Assistant Professor
> University of Plovdiv
> Dept. Molecular Biology
> Bioinformatics Group
> Tzar Assen 24
> Plovdiv 4000, BULGARIA
> +359 32 261 (560)
> +359 89 43 80 945
> Skype: vebaev
> vebaev at gmail.com
> baev at uni-plovdiv.bg
> http://plantgene.eu/
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>



-- 
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   cain.cshl at gmail.com
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research


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