Circos > Documentation > Tutorials > Ideograms > Progression And Orientation

Use the latest version of Circos and read Circos best practices—these list recent important changes and identify sources of common problems.

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3 — Drawing Ideograms

10. Progression and Orientation

circos.conf


<<include etc/colors_fonts_patterns.conf>>

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

<image>
<<include etc/image.conf>>
# The * suffix is used to overwrite any value of angle_orientation
# in the etc/image.conf file included in this block.
angle_orientation* = counterclockwise
</image>

karyotype   = data/karyotype/karyotype.human.txt

chromosomes_units           = 1000000
chromosomes_display_default = no

# to explicitly define what is drawn
chromosomes                 = hs1;hs2;hs3;hs4;hs5

# reverse direction of individual ideograms 
chromosomes_reverse = hs2;hs3

<highlights>
<highlight>
file = data/3/chr.highlights.txt
r0 = 0.9r
r1 = 0.95r
</highlight>
</highlights>

<<include etc/housekeeping.conf>>


bands.conf

show_bands            = yes
fill_bands            = yes
band_stroke_thickness = 2
band_stroke_color     = white
band_transparency     = 4


ideogram.conf


<ideogram>

<spacing>

default = 0.0025r
break   = 0.5r

</spacing>

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

</ideogram>



ideogram.label.conf

show_label       = yes
label_font       = bold
# labels outside circle
#label_radius     = dims(ideogram,radius) + 0.05r
#labels inside circle
label_radius     = dims(ideogram,radius) - 0.25r
label_with_tag   = yes
label_size       = 48
label_parallel   = yes
label_case       = upper


ideogram.position.conf

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


ticks.conf


show_ticks          = yes
show_tick_labels    = yes

<ticks>
skip_first_label = no
skip_last_label  = no
radius           = dims(ideogram,radius_outer)
tick_separation  = 3p
label_separation = 1p
multiplier       = 1e-6
color            = black
thickness        = 4p
size             = 20p

<tick>
spacing        = 1u
show_label     = no
thickness      = 2p
color          = dgrey
</tick>

<tick>
spacing        = 5u
show_label     = no
thickness      = 3p
color          = vdgrey
</tick>

<tick>
spacing        = 10u
show_label     = yes
label_size     = 20p
label_offset   = 10p
format         = %d
grid           = yes
grid_color     = dgrey
grid_thickness = 1p
grid_start     = 0.5r
grid_end       = 0.999r
</tick>

</ticks>