Circos > Documentation > Tutorials > Recipes > Cell Cycle Part 1
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Circos at the EMBO NGS workshop in Tunis, Sept 15–25.

Use the latest version of Circos and read Circos best practices—these list recent important changes and identify sources of common problems.
If you are having trouble, post your issue to the Circos Google Group and include all files and detailed error logs. Please do not email me directly unless it is urgent—you are much more likely to receive a timely reply from the group.
Don't know what question to ask? Read Points of View: Visualizing Biological Data by Bang Wong, myself and invited authors from the Points of View series.

8 — Recipes

20. Cell Cycle — Part 1

circos.conf


<<include etc/colors_fonts_patterns.conf>>

<<include ideogram.conf>>
<<include ticks.conf>>

<image>
<<include etc/image.conf>>
</image>

chromosomes_units           = 10
chromosomes_display_default = yes
chromosomes_scale           = g1=0.45,s=0.35,g2=0.15,m=0.05

karyotype         = phases.txt

palette           = greys-6-seq
<phases>
g1 = 3
s  = 4
g2 = 5
m  = 6
</phases>

chromosomes_color = g1=conf(palette)-conf(phases,g1),s=conf(palette)-conf(phases,s),g2=conf(palette)-conf(phases,g2),m=conf(palette)-conf(phases,m)

#don't show phase m
chromosomes                 = -m          

<links>

# connections between genes
<link>
file          = links.txt

radius        = 0.95r
bezier_radius = 0r

# shorter links will be drawn closer
# to the edge of the circle
bezier_radius_purity = 0.1
crest                = 1
thickness            = 3

<rules>

<rule>
condition = var(type) == 1
color     = red
</rule>
<rule>
condition = var(type) == 2
color     = blue
</rule>
</rules>

</link>
</links>

<plots>

<plot>
# gene labels

type = text
file = genes.txt

r0   = 0.95r
r1   = 1.5r

label_size     = 36
label_font     = bold

show_links     = yes
link_dims      = 0p,200p,20p,10p,20p
link_thickness = 3
link_color     = black

<rules>
<rule>
condition = 1
value     = eval(var(name))
</rule>
</rules>

</plot>

<plot>
# circular glyph at start of gene label

type = scatter
file = genes.txt

r0   = 0.95r
r1   = 0.95r

glyph = circle

glyph_size       = 36
color            = white
stroke_color     = black
stroke_thickness = 2

<rules>
<rule>
condition = var(type) == 1
color     = blues-5-seq-4
</rule>
<rule>
condition = var(type) == 2
color     = reds-5-seq-4
</rule>
</rules>
 
</plot>

</plots>

<<include etc/housekeeping.conf>>
restrict_parameter_names* = no


ideogram.conf


<ideogram>

<spacing>

default = 0.005r

</spacing>

<<include ideogram.position.conf>>
<<include ideogram.label.conf>>

</ideogram>



ideogram.label.conf


show_label       = yes
label_font       = bold
label_radius     = (dims(ideogram,radius_inner)+dims(ideogram,radius_outer)-conf(ideogram,label_size))/2
label_with_tag   = yes
label_size       = 72
label_color      = white
label_parallel   = yes
label_case       = upper

# you can format the label by using properties
# of the ideogram, accessible with var(PROPERTY):
#
# chr, chr_with_tag, chrlength, display_idx, end, idx, 
# label, length, reverse, scale, size, start, tag

#label_format     = eval(sprintf("chr%s",var(label)))


ideogram.position.conf

radius           = 0.90r
thickness        = 100p
fill             = yes
fill_color       = black
stroke_thickness = 2
stroke_color     = dgrey


ticks.conf


show_ticks          = yes
show_tick_labels    = yes
show_grid           = yes

<ticks>
radius         = dims(ideogram,radius_outer)

color          = dgrey
thickness      = 2p
size           = 15p

grid           = yes
grid_start     = dims(ideogram,radius_outer)
grid_end       = dims(ideogram,radius_inner)
grid_color     = white

spacing_type   = relative
label_relative = yes
format         = %d
rmultiplier    = 100
suffix         = %

<tick>
rspacing       = 0.05
grid_thickness = 1p
</tick>

<tick>
rspacing       = 0.10
show_label     = yes
label_size     = 26p
label_offset   = 5p
grid_thickness = 2p
</tick>

</ticks>