<<include /software/circos/0.69-9/circos-0.69-9/etc/colors_fonts_patterns.conf>>

<<include /software/circos/0.69-9/circos-0.69-9/etc/housekeeping.conf>>

<<include /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.ideogram.conf>>
<<include /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.ticks.conf>>

<image>
<<include /software/circos/0.69-9/circos-0.69-9/etc/image.conf>>
</image>

karyotype   = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.karyotype

chromosomes_units           = 10
chromosomes_display_default = no
chromosomes                 = chrM

<plots>

<plot>
type = tile
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.minus.protein_coding.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 12
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = dorange
color = dorange
r0 = 0.98r
r1 = 0.99r
</plot>

<plot>
type = tile
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.plus.protein_coding.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 12
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = green
color = green
r0 = 0.96r
r1 = 0.98r
</plot>

<plot>
type = tile
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.plus.rRNA.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 12
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = blue
color = blue
r0 = 0.95r
r1 = 0.96r
</plot>

<plot>
type = tile
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.plus.tRNA.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 12
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = purple
color = purple
r0 = 0.93r
r1 = 0.95r
</plot>

<plot>
type = tile
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.minus.tRNA.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 12
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = gpos75
color = gpos75
r0 = 0.91r
r1 = 0.93r
</plot>

<plot>
type = text
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.protein_coding.text
color      = black
label_font = bold
label_size = 36p
label_parallel   = no
padding = 15p
rpadding = 15p
z       = 1
r0 = 1.02r
r1 = 1.22r
</plot>

<plot>
type = text
file = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2018-07-14-ENCODE-TFs/config-files/hg19.chrM.tRNA.text
color      = black
label_font = bold
label_size = 30p
label_parallel   = yes
padding = 2p
rpadding = 2p
z       = 2
r0 = 1.03r
r1 = 1.08r
</plot>

type      = histogram
thickness = 0.5



<plot>
show    = yes
file    = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2022-05-13-final-figures/chrM_predictions/fold0/ENCSR720HUL/ENCSR720HUL_split000_predictions_track_0.wig
z       = 5
max_gap = 0u
fill_under = yes
fill_color = red
color   = red
min     = 0
max     = 95249
r0      = 0.70r
r1      = 0.90r
</plot>


<plot>
show    = yes
file    = /oak/stanford/groups/akundaje/marinovg/papers/2022_organelles_TFs/2022-05-13-final-figures/chrM_predictions/fold0/ENCSR720HUL/ENCSR720HUL_split000_predictions_track_1.minus.wig.sign_flipped
z       = 5
max_gap = 0u
orientation = in
fill_under = yes
fill_color = blue
color   = blue
min     = 0
max     = 319700
r0      = 0.50r
r1      = 0.70r
</plot>

</plots>
