<<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/ENCODE4/Chromatin-nanopores/2022-07-09-NextSeq-run/pCL056-no-reporter.ideogram.conf>>
<<include /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2022-07-09-NextSeq-run/pCL056-no-reporter.ticks.conf>>

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

karyotype   = /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2022-07-09-NextSeq-run/pCL056-no-reporter.chrM.karyotype

chromosomes_units           = 10
chromosomes_display_default = no
chromosomes                 = pCL056-no-enhancer-AAVS1-portion-only

<plots>

<plot>
type = tile
file = pCL056.annotations.tile
layers = 2
layers_overflow = hide
margin = 0.2u
thickness = 24
padding = 6
orientation = out
stroke_thickness = 1
stroke_color = blue
color = blue
r0 = 0.95r
r1 = 0.99r
</plot>

<plot>
type = text
file = pCL056.annotations.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>


type      = histogram
thickness = 0.5

<plot>
show    = yes
file    = /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ChIP/L2487-Michaela_Dox_H3K27ac_rep1/L2487-Michaela_Dox_H3K27ac_rep1.2x36mers.hg38-no-haps+pCL056-no-reporter.unique.dedup.RPM.pCL056.wig
z       = 5
max_gap = 0u
fill_under = yes
fill_color = red
color   = black
min     = 0
max     = 2.6
r0      = 0.85r
r1      = 0.95r
</plot>

<plot>
show    = yes
file    = /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ChIP/L2491-Michaela_QuickDox_H3K27ac_rep1/L2491-Michaela_QuickDox_H3K27ac_rep1.2x36mers.hg38-no-haps+pCL056-no-reporter.unique.dedup.RPM.pCL056.wig
z       = 5
max_gap = 0u
fill_under = yes
fill_color = orange
color   = black
min     = 0
max     = 2.6
r0      = 0.75r
r1      = 0.85r
</plot>

<plot>
show    = yes
file    = /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-ChIP/L2489-Michaela_NoDox_H3K27ac_rep1/L2489-Michaela_NoDox_H3K27ac_rep1.2x36mers.hg38-no-haps+pCL056-no-reporter.unique.dedup.RPM.pCL056.wig
z       = 5
max_gap = 0u
fill_under = yes
fill_color = yellow
color   = black
min     = 0
max     = 2.6
r0      = 0.65r
r1      = 0.75r
</plot>

</plots>
