# circos.conf

karyotype = CCBS_karyotype.txt

chromosomes_radius  = dq1:1.1r,dq2:1.1r,dq3:1.1r,dq4:1.1r

<links>
<link>
file = JointP50Links.txt
radius = 0.97r
bezier_radius = 0.3r
color = pred
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>


<link>
file = JointOtherLinks.txt
radius = 0.97r
bezier_radius = 0.3r
color = dyellow
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>

<link>
file = OpportunityLinks.txt
radius = 0.97r
bezier_radius = 0.3r
color = purple
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>

<link>
file = CollaborationLinks.txt
radius = 0.97r
bezier_radius = 0.3r
#color = chr14
color = chr20
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>

<link>
file = P50Links.txt
radius1 = 0.97r
radius2 = 1.0r
bezier_radius = 0.3r
color = pgreen
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>

<link>
file = T32Links.txt
radius1 = 0.97r
radius2 = 1.0r
bezier_radius = 0.3r
color = pblue
thickness = 2
ribbon = yes
flat = yes

<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>
</link>

<link>
file = R25Links.txt
radius1 = 0.97r
radius2 = 1.0r
bezier_radius = 0.3r
color = porange
thickness = 2
ribbon = yes
flat = yes

<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>


<link>
file = MCSBLinks.txt
radius1 = 0.97r
radius2 = 1.0r
bezier_radius = 0.3r
color = white
thickness = 2
ribbon = yes
flat = yes
<rules>
<rule>
condition = 1
z          = eval(int(max(var(size1),var(size2))/100))
</rule>
</rules>

</link>

</links>



<ideogram>

<spacing>
default = 0.0005r
</spacing>

radius    = 0.75r
thickness = 450p
fill      = yes

show_label = yes
label_font = bold
label_size = 120
label_case = upper
label_radius = 1r + 50p
label_parallel = no
label_color = white

</ideogram>

################################################################
# The remaining content is standard and required. It is imported 
# from default files in the Circos distribution.
#
# These should be present in every Circos configuration file and
# overridden as required. To see the content of these files, 
# look in etc/ in the Circos distribution.

<image>
# Included from Circos distribution.
<<include etc/circos/image.conf>>
</image>

# RGB/HSV color definitions, color lists, location of fonts, fill patterns.
# Included from Circos distribution.
<<include etc/circos/colors_fonts_patterns.conf>>

# Debugging, I/O an dother system parameters
# Included from Circos distribution.
<<include etc/circos/housekeeping.conf>>