Histogram data overlaping problem

[Samarth Kulshrestha]

Dear Martin

I have one problem regarding histogram plot. My data is in 4 coloumn format. 4th column has maximum value=19 and minimum value= -16.
I want a histogram plot with:
<rules>
<rule>
condition  = var(value) < 0
show       = yes
fill_color = dred
orientation = in
</rule>

<rule>
condition  = var(value) > 0
show       = yes
fill_color = dgreen
orientation = out
</rule>

Even after applying these rules circos plot shows some overlap regions(attached image "chr13: few red bars are in outside orientation). All i want to plot is a histogram with value < 0 in green (outside orientation) and value > 0 red (inside orientation) without any overlap.


Thanks

[Martin Krzywinski]

The orientation parameter applies to a plot not an individual data point.

You do not need to switch the orientation for data points -- negative and positive values will automatically be drawn in opposite direction from the baseline.

If you want negative values to point "out" then set

<plot>

...

orientation = in

fill_color = red

...

and use rules just to color the bins that are < 0. 

<rules>

<rule>

condition = var(value) < 0

fill_color = green

</rule>

<rule>
</rules>

Martin Krzywinski

science + art

http://mkweb.bcgsc.ca

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[Samarth Kulshrestha]

Thanks for your valuable suggestions Martin in the previous post.
But i have another set of problem.

hsY    359001    2918000    -10
hsY    2918001    6109000    -10
hsY    7443001    9173001    -9
hsY    10084001    13132000    -15
hsY    14703001    22216001    -12
hsY    17784001    20608000    1
hsY    22514001    28755001    -12
hsY    28784001    58984000    3
hsY    28815001    56522000    -14
hsY    57251001    58280000    -14

Suppose i have data-set mentioned above with overlapped bins(in bold). When i run circos i get an image with histogram bars(attached: chrY), but in presence of overlapping bins, understanding of circos visualization is a bit difficult. Here Red bars support negative value events and grey bars support  positive value events.

Histogram script:
<plots>
<plot>
type      = histogram
file      = try1
r1   = 0.88r
r0   = 0.65r
orientation = in
fill_color = vdgrey

max       = 19
min       = -16
stroke_type = outline
thickness   = 0.01
extend_bin  = no

<rules>
<rule>
condition  = var(value) < 0

fill_color= vvdred
</rule>
</rules>


Problem:
Data visualization is a bit confusing as red bars captures positive value area below the base line. So any suggestion for this kind of problem?

Thanks

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