plotprofile adjustments

[Marina Veil]

Hello everybody,

 

I would like to have the option to place the legend properly in plotprofile and try to avoid it to have it in the middle of the graph. Is there any option to do it? And since I need a bunch of graphs for a figure, can I adjust the y-axis to the same scale/numbers, so that the graphs are comparable? Also I’d like to get rid of the TSS in the graph, because I look at binding sites and not promoters.

 

I would appreciate your help. Thank you in advance.

 

All the best

 

Marina Veil

PhD student

Institute for Biology I

Hauptstr. 1

79104 Freiburg

 

[Devon Ryan]

Hi Marina,

You can change the legend location using the `--legendLocation`
option. If you want to place it outside of the profile plots itself
there's no support for that currently (I'm not sure the plotting
package we use even supports that). You can adjust the Y axis bounds
with `--yMin` and `--yMax`. Also, you can change the TSS label with
`--startLabel` (set it to " " to make it blank).

Devon

--
Devon Ryan, Ph.D.
Email: dpr...@dpryan.com
Data Manager/Bioinformatician
Max Planck Institute of Immunobiology and Epigenetics
Stübeweg 51
79108 Freiburg
Germany

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[Hunter Richards]

Apologies if this is too obvious but since there likely isn't a way for any program to really make the plots cosmetically look exactly the way you want, I suggest saving the plots in either pdf or eps format then editing them in Adobe Illustrator (or similar program, e.g. Inkscape, which is free BTW). These formats are vector-based so you can easily resize the plot as well with no loss in resolution. 

Best regards,

-hunter