my_circos.conf

show_links      = yes

<colors>
<<include colors.unix.txt>>
<<include /Users/stijnmichielse/Documents/Network_group/Circos/circos-0.66/data/my_circos_data/my_colors.txt>>
</colors>

karyotype = /Users/stijnmichielse/Documents/Network_group/Circos/circos-0.66/data/my_circos_data/circos_aal_names.txt

chromosomes_order_by_karyotype	= yes
chromosomes_units		= 1
chromosomes_display_default	= yes
#chromosomes_display_default	= no
#chromosomes			= /aal[1-9]$/
chromosomes_scale		= /./=1rn

### links

<links>
show          = conf(show_links)
ribbon        = yes
flat          = yes
radius        = 0.99r
bezier_radius = 0r

<link>
file = /Users/stijnmichielse/Documents/Network_group/Circos/circos-0.66/data/my_circos_data/mean_FA_links.txt
</link>

</links>

<<include my_ideogram.conf>>
<<include my_ticks.conf>>

<image>
<<include my_image.conf>>
</image>

<<include etc/colors_fonts_patterns.conf>>

# system and debug settings
<<include etc/housekeeping.conf>>

anti_aliasing* = no