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Sainsbury Laboratory
teamHJ
publications
Refahi_etal_2020
Commits
be98ecf4
Commit
be98ecf4
authored
4 years ago
by
Argyris Z
Browse files
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Analysis of lfy mutant
parent
827ed750
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growthAnalysis/lfy.py
+504
-0
504 additions, 0 deletions
growthAnalysis/lfy.py
growthAnalysis/selected_cells_t47.py
+36
-0
36 additions, 0 deletions
growthAnalysis/selected_cells_t47.py
with
540 additions
and
0 deletions
growthAnalysis/lfy.py
0 → 100644
+
504
−
0
View file @
be98ecf4
from
collections
import
defaultdict
import
_pickle
as
cPickle
from
os.path
import
join
import
common.lin
as
lin
import
common.seg
as
seg
import
selected_cells_t47
as
s
import
pr
import
grates_lfy
as
grateslf
import
grates
import
numpy
as
np
import
seaborn
as
sns
import
matplotlib.pyplot
as
plt
from
mpl_toolkits.mplot3d
import
Axes3D
import
math
from
itertools
import
repeat
import
growth_control
as
gc
def
plot_ts_q_
(
ts
,
d
,
lb
=
"
vals
"
,
bounds
=
(
0
,
1
),
txt
=
""
):
vmin
,
vmax
=
bounds
xs
=
[
c
.
pos
.
x
for
c
in
ts
]
ys
=
[
c
.
pos
.
y
for
c
in
ts
]
zs
=
[
c
.
pos
.
z
for
c
in
ts
]
cs
=
[
d
[
c
.
cid
]
for
c
in
ts
]
fig
=
plt
.
figure
(
figsize
=
(
1.5
,
1.5
))
ax
=
fig
.
add_subplot
(
111
,
projection
=
'
3d
'
)
ax
.
view_init
(
elev
=-
77
,
azim
=-
55
)
ax
.
scatter
(
xs
,
ys
,
zs
,
c
=
cs
,
cmap
=
"
coolwarm
"
,
alpha
=
0.9
,
s
=
7
,
vmin
=
vmin
,
vmax
=
vmax
,
edgecolors
=
'
black
'
,
linewidths
=
0.5
)
ax
.
set_title
(
txt
)
plt
.
axis
(
'
off
'
)
fout
=
"
comb_regions/{lb}.png
"
.
format
(
lb
=
lb
)
plt
.
savefig
(
fout
,
dpi
=
300
,
bbox_inches
=
'
tight
'
)
plt
.
show
()
def
convertLins
(
linD
):
ts
=
[
0
,
9
,
17
,
24
,
32
,
39
,
47
,
57
]
for
t1
,
t2
in
zip
(
ts
,
ts
[
1
:]):
print
(
t1
,
t2
)
linFn_
=
"
daughters_mothers_{t1}h_{t2}h.lin
"
linFn
=
join
(
linD
,
linFn_
.
format
(
t1
=
str
(
t1
),
t2
=
str
(
t2
)))
with
open
(
linFn
,
"
rb
"
)
as
linF
:
ln
=
cPickle
.
load
(
linF
,
encoding
=
"
latin1
"
)
x
=
defaultdict
(
list
)
for
d
,
m
in
ln
[
0
]:
x
[
m
].
append
(
d
)
txtLinFn
=
"
{t1}hrs_to_{t2}hrs.txt
"
with
open
(
join
(
linD
,
txtLinFn
.
format
(
t1
=
str
(
t1
),
t2
=
str
(
t2
))),
"
w
"
)
as
fout
:
rs
=
list
()
for
m
,
ds
in
x
.
items
():
dsRepr
=
"
,
"
.
join
([
str
(
d
)
for
d
in
ds
])
r
=
"
{m}: {ds}
"
.
format
(
m
=
str
(
m
),
ds
=
dsRepr
)
rs
.
append
(
r
)
fout
.
write
(
"
\n
"
.
join
(
rs
))
def
read_filter_tss
():
tss
,
linss
=
lin
.
mkSeriesGeomIm
(
"
/Users/s1437009/Downloads/
"
)
cs_t47
=
set
.
union
(
s
.
region_1
,
s
.
region_2
,
s
.
region_3
,
s
.
region_4
,
s
.
region_5
)
tss
[
47
].
L1_cells
=
cs_t47
tss
[
47
]
=
tss
[
47
].
filterL1
()
with
open
(
"
t47_L1.csv
"
,
"
w
"
)
as
fout
:
fout
.
write
(
tss
[
47
].
toOrganism
())
def
cell_types
():
ctyps
=
dict
()
for
cid
in
s
.
region_1
:
ctyps
[
cid
]
=
1
for
cid
in
s
.
region_2
:
ctyps
[
cid
]
=
2
for
cid
in
s
.
region_3
:
ctyps
[
cid
]
=
3
for
cid
in
s
.
region_4
:
ctyps
[
cid
]
=
4
for
cid
in
s
.
region_5
:
ctyps
[
cid
]
=
5
return
ctyps
def
get_ctypes_
():
fns
=
[
"
t47_centre.csv
"
,
# 1
"
t47_boundaries.csv
"
,
# 2
"
t47_insepals.csv
"
,
# 3
"
t47_outsepals1.csv
"
]
# 4
ctyps
=
dict
()
for
i
,
fn
in
enumerate
(
fns
):
d
=
pr
.
read_csv
(
fn
)
for
cid
in
set
([
elem
[
"
id
"
]
for
elem
in
d
]):
ctyps
[
cid
]
=
i
+
1
return
ctyps
def
get_ctypes_t39
():
tss
,
linss
=
lin
.
mkSeriesGeomIm
(
"
/Users/s1437009/Downloads/
"
)
ctyps
=
dict
()
for
cid
in
s
.
region1_t39
(
linss
):
ctyps
[
cid
]
=
1
for
cid
in
s
.
region2_t39
(
linss
):
ctyps
[
cid
]
=
2
for
cid
in
s
.
region3_t39
(
linss
):
ctyps
[
cid
]
=
3
for
cid
in
s
.
region4_t39
(
linss
):
ctyps
[
cid
]
=
4
for
cid
in
s
.
region5_t39
(
linss
):
ctyps
[
cid
]
=
5
return
ctyps
def
gratio_ts
(
grs
,
r1
,
r2
):
def
gratio
(
xs
,
xs1
):
if
not
xs
or
not
xs1
:
return
np
.
nan
m1
=
np
.
median
(
xs
)
m2
=
np
.
median
(
xs1
)
return
(
m1
-
m2
)
/
(
m1
+
m2
)
grs1
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r1
]
grs2
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r2
]
grs1_
=
[
gr
for
gr
in
grs1
if
not
math
.
isnan
(
gr
)
and
gr
>
-
0.005
and
gr
<
0.15
]
grs2_
=
[
gr
for
gr
in
grs2
if
not
math
.
isnan
(
gr
)
and
gr
>
-
0.005
and
gr
<
0.15
]
return
gratio
(
grs1_
,
grs2_
)
def
plot_distrs
(
grs
,
r1
,
r2
,
lb
):
grs1
=
[
grs
[
cid
]
for
cid
in
r1
if
grs
[
cid
]
>
-
0.005
and
grs
[
cid
]
<
0.15
]
grs2
=
[
grs
[
cid
]
for
cid
in
r2
if
grs
[
cid
]
>
-
0.005
and
grs
[
cid
]
<
0.15
]
cls
=
sns
.
color_palette
(
"
coolwarm
"
)
fig
=
plt
.
figure
(
figsize
=
(
3.5
,
3.7
))
ax
=
fig
.
add_subplot
(
'
111
'
)
ax
.
set_xlim
(
-
0.05
,
0.18
)
sns
.
distplot
(
grs1
,
bins
=
10
,
color
=
cls
[
-
1
],
kde
=
True
,
ax
=
ax
,
label
=
"
region1
"
)
sns
.
distplot
(
grs2
,
bins
=
10
,
color
=
cls
[
0
],
kde
=
True
,
ax
=
ax
,
label
=
"
region2
"
)
ax
.
set_xlabel
(
r
'
$\mu$m/h
'
.
format
())
plt
.
savefig
(
"
comb_regions/zone{i}.png
"
.
format
(
i
=
lb
),
dpi
=
300
)
plt
.
show
()
def
plot_distrs_strip
(
grs
,
r1
,
r2
,
lb
):
grs1
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r1
]
grs2
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r2
]
grs1_
=
[
gr
for
gr
in
grs1
if
not
math
.
isnan
(
gr
)
and
gr
>
-
0.005
and
gr
<
0.15
]
grs2_
=
[
gr
for
gr
in
grs2
if
not
math
.
isnan
(
gr
)
and
gr
>
-
0.005
and
gr
<
0.15
]
m1
=
np
.
median
(
grs1_
)
m2
=
np
.
median
(
grs2_
)
gr
=
(
m1
-
m2
)
/
(
m1
+
m2
)
cls
=
sns
.
color_palette
(
"
coolwarm
"
)
fig
=
plt
.
figure
(
figsize
=
(
4
,
3
))
ax
=
fig
.
add_subplot
(
'
111
'
)
ax
.
set_xlim
(
-
0.05
,
0.18
)
ax
.
set_title
(
"
gr={:.3f}
"
.
format
(
gr
))
xs
=
list
(
repeat
(
1
,
len
(
grs1_
)))
+
list
(
repeat
(
1
,
len
(
grs2_
)))
hs
=
list
(
repeat
(
1
,
len
(
grs1_
)))
+
list
(
repeat
(
2
,
len
(
grs2_
)))
ys
=
grs1_
+
grs2_
sns
.
stripplot
(
xs
,
ys
,
hue
=
hs
,
ax
=
ax
,
alpha
=
0.25
,
palette
=
{
1
:
cls
[
0
],
2
:
cls
[
-
1
]})
sns
.
pointplot
([
1
,
1
],
[
m1
,
m2
],
hue
=
[
1
,
2
],
join
=
False
,
markers
=
"
d
"
,
scale
=
.
75
,
ci
=
None
,
ax
=
ax
,
palette
=
{
1
:
cls
[
0
],
2
:
cls
[
-
1
]})
ax
.
set_xlabel
(
r
'
$\mu$m/h
'
.
format
())
plt
.
savefig
(
"
comb_regions/zone{i}_strip.png
"
.
format
(
i
=
lb
),
dpi
=
300
)
plt
.
show
()
def
plot_distrs_strip_
(
grs
,
grs_
,
r1
,
r2
,
r1_
,
r2_
,
lb
):
grs1
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r1
]
grs2
=
[
grs
.
get
(
cid
,
np
.
nan
)
for
cid
in
r2
]
grs1_
=
[
gr
for
gr
in
grs1
if
not
math
.
isnan
(
gr
)]
grs2_
=
[
gr
for
gr
in
grs2
if
not
math
.
isnan
(
gr
)]
grs1_1
=
[
grs_
.
get
(
cid
,
np
.
nan
)
for
cid
in
r1_
]
grs2_1
=
[
grs_
.
get
(
cid
,
np
.
nan
)
for
cid
in
r2_
]
grs1_1
=
[
gr
for
gr
in
grs1_1
if
not
math
.
isnan
(
gr
)]
grs2_1
=
[
gr
for
gr
in
grs2_1
if
not
math
.
isnan
(
gr
)]
m1
=
np
.
mean
(
grs1_
)
m2
=
np
.
mean
(
grs2_
)
m1_
=
np
.
mean
(
grs1_1
)
m2_
=
np
.
mean
(
grs2_1
)
cls
=
sns
.
color_palette
(
"
coolwarm
"
)
fig
=
plt
.
figure
(
figsize
=
(
4
,
3
))
ax
=
fig
.
add_subplot
(
'
111
'
)
xs
=
(
list
(
repeat
(
"
lfy
"
,
len
(
grs1_
)))
+
list
(
repeat
(
"
lfy
"
,
len
(
grs2_
)))
+
list
(
repeat
(
"
wt
"
,
len
(
grs1_1
)))
+
list
(
repeat
(
"
wt
"
,
len
(
grs2_1
))))
hs
=
(
list
(
repeat
(
1
,
len
(
grs1_
)))
+
list
(
repeat
(
2
,
len
(
grs2_
)))
+
list
(
repeat
(
1
,
len
(
grs1_1
)))
+
list
(
repeat
(
2
,
len
(
grs2_1
))))
ys
=
grs1_
+
grs2_
+
grs1_1
+
grs2_1
sns
.
stripplot
(
xs
,
ys
,
hue
=
hs
,
ax
=
ax
,
alpha
=
0.25
,
palette
=
{
1
:
cls
[
-
1
],
2
:
cls
[
0
]})
sns
.
pointplot
([
1
,
1
,
2
,
2
],
[
m1
,
m2
,
m1_
,
m2_
],
hue
=
[
1
,
2
,
1
,
2
],
join
=
False
,
markers
=
"
d
"
,
scale
=
.
75
,
ci
=
None
,
ax
=
ax
,
palette
=
{
1
:
cls
[
-
1
],
2
:
cls
[
0
]})
ax
.
set_xlabel
(
r
'
$\mu$m/h
'
.
format
())
ax
.
set_xticklabels
([
"
lfy
"
,
"
wt
"
])
plt
.
savefig
(
"
comb_regions/zone{i}_strip.png
"
.
format
(
i
=
lb
),
dpi
=
300
)
plt
.
show
()
def
region_gratios_t39
(
tss
,
linss
):
r1_t39
=
s
.
region1_t39
(
linss
)
r2_t39
=
s
.
region2_t39
(
linss
)
r3_t39
=
s
.
region3_t39
(
linss
)
r4_t39
=
s
.
region4_t39
(
linss
)
r5_t39
=
s
.
region5_t39
(
linss
)
cids_t39
=
set
.
union
(
r1_t39
,
r2_t39
,
r3_t39
,
r4_t39
,
r5_t39
)
tss
[
39
].
L1_cells
=
cids_t39
tss
[
39
]
=
tss
[
39
].
filterL1
()
zone1
=
(
r1_t39
,
r5_t39
)
zone3
=
(
set
.
union
(
r1_t39
,
r2_t39
),
set
.
union
(
r3_t39
,
r4_t39
))
grsss
=
grates
.
grates_avg_cons
(
tss
,
linss
)
grss
=
grsss
[
39
]
for
i
,
sep
in
enumerate
([
zone1
,
zone3
]):
p1
,
p2
=
sep
plot_distrs_strip
(
grss
,
p1
,
p2
,
"
{i}_t{t}
"
.
format
(
i
=
str
(
i
+
1
),
t
=
39
))
gr
=
gratio_ts
(
grss
,
p1
,
p2
)
print
(
i
+
1
,
gr
)
d
=
dict
()
for
c
in
tss
[
39
]:
if
c
.
cid
in
p1
:
d
[
c
.
cid
]
=
1.0
elif
c
.
cid
in
p2
:
d
[
c
.
cid
]
=
0.0
else
:
d
[
c
.
cid
]
=
0.5
plot_ts_q_
(
tss
[
39
],
d
,
lb
=
"
zone{i}_t39_templ
"
.
format
(
i
=
i
+
1
),
bounds
=
(
0.1
,
0.9
))
def
region_gratios_t47
(
tss
,
linss
):
r1_t47
=
s
.
region_1
r2_t47
=
s
.
region_2
r3_t47
=
s
.
region_3
r4_t47
=
s
.
region_4
r5_t47
=
s
.
region_5
cids_t47
=
set
.
union
(
r1_t47
,
r2_t47
,
r3_t47
,
r4_t47
,
r5_t47
)
tss
[
47
].
L1_cells
=
cids_t47
tss
[
47
]
=
tss
[
47
].
filterL1
()
zone1
=
(
r1_t47
,
r5_t47
)
zone2
=
(
set
.
union
(
r1_t47
,
r2_t47
),
set
.
union
(
r3_t47
,
r4_t47
,
r5_t47
))
zone3
=
(
set
.
union
(
r1_t47
,
r2_t47
),
set
.
union
(
r3_t47
,
r4_t47
))
grss
=
grates
.
grates_backward
(
tss
,
linss
,
39
,
47
)
for
i
,
sep
in
enumerate
([
zone1
,
zone2
,
zone3
]):
p1
,
p2
=
sep
plot_distrs_strip
(
grss
,
p1
,
p2
,
"
{i}_t{t}
"
.
format
(
i
=
str
(
i
+
1
),
t
=
47
))
gr
=
gratio_ts
(
grss
,
p1
,
p2
)
print
(
i
+
1
,
gr
)
d
=
dict
()
for
c
in
tss
[
47
]:
if
c
.
cid
in
p1
:
d
[
c
.
cid
]
=
1.0
elif
c
.
cid
in
p2
:
d
[
c
.
cid
]
=
0.0
else
:
d
[
c
.
cid
]
=
0.5
plot_ts_q_
(
tss
[
47
],
d
,
lb
=
"
zone{i}_t47_templ
"
.
format
(
i
=
i
+
1
),
bounds
=
(
0.1
,
0.9
))
def
boundary_gratios
():
tss
,
linss
=
lin
.
mkSeriesGeomIm
(
"
/Users/s1437009/Downloads/
"
)
r1_t47
=
s
.
region_1
r2_t47
=
s
.
region_2
r3_t47
=
s
.
region_3
r4_t47
=
s
.
region_4
r5_t47
=
s
.
region_5
cids_t47
=
set
.
union
(
r1_t47
,
r2_t47
,
r3_t47
,
r4_t47
,
r5_t47
)
tss
[
47
].
L1_cells
=
cids_t47
tss
[
47
]
=
tss
[
47
].
filterL1
()
r1
=
set
.
union
(
r1_t47
,
r2_t47
)
r2
=
set
.
union
(
r3_t47
,
r4_t47
)
grss
=
grates
.
grates_backward
(
tss
,
linss
,
39
,
47
)
plot_distrs_strip
(
grss
,
r1
,
r2
,
"
boundary
"
)
d
=
dict
()
for
c
in
tss
[
47
]:
if
c
.
cid
in
r1
:
d
[
c
.
cid
]
=
1.0
elif
c
.
cid
in
r2
:
d
[
c
.
cid
]
=
0.0
else
:
d
[
c
.
cid
]
=
0.5
plot_ts_q_
(
tss
[
47
],
d
,
lb
=
"
zone{i}_t47_templ
"
.
format
(
i
=
"
boundaries
"
),
bounds
=
(
0.1
,
0.9
))
def
filterL1_lfy
(
tss
,
linss
):
r1_t39
=
s
.
region1_t39
(
linss
)
r2_t39
=
s
.
region2_t39
(
linss
)
r3_t39
=
s
.
region3_t39
(
linss
)
r4_t39
=
s
.
region4_t39
(
linss
)
r5_t39
=
s
.
region5_t39
(
linss
)
cids_t39
=
set
.
union
(
r1_t39
,
r2_t39
,
r3_t39
,
r4_t39
,
r5_t39
)
tss
[
39
].
L1_cells
=
cids_t39
tss
[
39
]
=
tss
[
39
].
filterL1
()
r1_t47
=
s
.
region_1
r2_t47
=
s
.
region_2
r3_t47
=
s
.
region_3
r4_t47
=
s
.
region_4
r5_t47
=
s
.
region_5
cids_t47
=
set
.
union
(
r1_t47
,
r2_t47
,
r3_t47
,
r4_t47
,
r5_t47
)
tss
[
47
].
L1_cells
=
cids_t47
tss
[
47
]
=
tss
[
47
].
filterL1
()
def
do_gratios_lfy_wt
(
tss
,
linss
,
tss_
,
linss_
):
r1_t39
=
s
.
region1_t39
(
linss
)
r2_t39
=
s
.
region2_t39
(
linss
)
r3_t39
=
s
.
region3_t39
(
linss
)
r4_t39
=
s
.
region4_t39
(
linss
)
r5_t39
=
s
.
region5_t39
(
linss
)
zone1
=
(
r1_t39
,
r5_t39
)
zone3
=
(
set
.
union
(
r1_t39
,
r2_t39
),
set
.
union
(
r3_t39
,
r4_t39
))
zone1_
=
gc
.
GPairRegions
(
120
,
tss_
[
120
],
'
ETTIN
'
,
'
LFY
'
).
get_regions
()
zone3_
=
gc
.
GPairRegions
(
120
,
tss_
[
120
],
'
AP1
'
,
'
LFY
'
).
get_regions
()
grss
=
grateslf
.
grates_avg_cons
(
tss
,
linss
)
grss_
=
grates
.
grates_avg_cons
(
tss_
,
linss_
)
for
i
,
(
z
,
z_
)
in
enumerate
([(
zone1
,
zone1_
),
(
zone3
,
zone3_
)]):
print
(
i
)
r1
,
r2
=
z
r1_
,
r2_
=
z_
plot_distrs_strip_
(
grss
[
39
],
grss_
[
120
],
r1
,
r2
,
r1_
,
r2_
,
"
s3-comp-{i}
"
.
format
(
i
=
i
))
def
do_comp
(
tss
,
linss
,
tss_
,
linss_
):
r1_t39
=
s
.
region1_t39
(
linss
)
r2_t39
=
s
.
region2_t39
(
linss
)
r3_t39
=
s
.
region3_t39
(
linss
)
r4_t39
=
s
.
region4_t39
(
linss
)
r5_t39
=
s
.
region5_t39
(
linss
)
r1_t47
=
s
.
region_1
r2_t47
=
s
.
region_2
r3_t47
=
s
.
region_3
r4_t47
=
s
.
region_4
r5_t47
=
s
.
region_5
zones_s3
=
[((
r1_t39
,
r5_t39
),
gc
.
GPairRegions
(
120
,
tss_
[
120
],
'
ETTIN
'
,
'
LFY
'
).
get_regions
()),
((
set
.
union
(
r1_t39
,
r2_t39
),
set
.
union
(
r3_t39
,
r4_t39
)),
gc
.
GPairRegions
(
120
,
tss_
[
120
],
'
AP1
'
,
'
LFY
'
).
get_regions
())]
zones_s4
=
[((
r1_t47
,
r5_t47
),
gc
.
GPairRegions
(
132
,
tss_
[
132
],
'
ETTIN
'
,
'
LFY
'
).
get_regions
()),
((
set
.
union
(
r1_t47
,
r2_t47
),
set
.
union
(
r3_t47
,
r4_t47
)),
gc
.
GPairRegions
(
132
,
tss_
[
132
],
'
AP1
'
,
'
LFY
'
).
get_regions
()),
((
set
.
union
(
r1_t47
,
r2_t47
),
set
.
union
(
r3_t47
,
r4_t47
,
r5_t47
)),
gc
.
GPairRegions
(
132
,
tss_
[
132
],
'
SEP1
'
,
'
LFY
'
).
get_regions
())]
annots
=
[
"
z1-s3
"
,
"
z2-s3
"
,
"
z1-s4
"
,
"
z2-s4
"
,
"
z3-s4
"
]
grss
=
grateslf
.
grates_avg_cons
(
tss
,
linss
)
grss_
=
grates
.
grates_avg_cons
(
tss_
,
linss_
)
lfy
=
list
()
wt
=
list
()
for
z
,
z_
in
zones_s3
:
r1
,
r2
=
z
lfy
.
append
(
gratio_ts
(
grss
[
39
],
r1
,
r2
))
r1_
,
r2_
=
z_
wt
.
append
(
gratio_ts
(
grss_
[
120
],
r1_
,
r2_
))
for
z
,
z_
in
zones_s4
:
r1
,
r2
=
z
lfy
.
append
(
gratio_ts
(
grss
[
47
],
r1
,
r2
))
r1_
,
r2_
=
z_
wt
.
append
(
gratio_ts
(
grss_
[
132
],
r1_
,
r2_
))
plt
.
rcParams
.
update
({
'
font.size
'
:
8
})
fig
=
plt
.
figure
(
figsize
=
(
2.7
,
2.7
))
ax
=
plt
.
subplot2grid
((
1
,
1
),
(
0
,
0
))
sns
.
scatterplot
(
wt
,
lfy
,
ax
=
ax
,
s
=
80
,
alpha
=
1.0
)
ax
.
set_xlabel
(
"
wt
"
)
ax
.
set_ylabel
(
"
lfy
"
)
sns
.
lineplot
(
x
=
[
-
0.1
,
1.1
],
y
=
[
-
0.1
,
1.1
],
ax
=
ax
,
linewidth
=
0.5
)
ax
.
lines
[
0
].
set_linestyle
(
"
--
"
)
for
annot
,
x
,
y
in
zip
(
annots
,
wt
,
lfy
):
ax
.
annotate
(
annot
,
(
x
,
y
))
plt
.
show
()
This diff is collapsed.
Click to expand it.
growthAnalysis/selected_cells_t47.py
0 → 100644
+
36
−
0
View file @
be98ecf4
import
common.lin
as
lin
region_1
=
set
([
1544
,
1041
,
2066
,
1561
,
687
,
1058
,
1059
,
2089
,
2094
,
1091
,
584
,
1098
,
1463
,
2126
,
603
,
1628
,
2142
,
611
,
1129
,
1140
,
630
,
2175
,
646
,
1676
,
676
,
2220
,
1711
,
689
,
2232
,
1725
,
2238
,
1218
,
2243
,
1220
,
712
,
1226
,
2255
,
2257
,
1234
,
1237
,
743
,
758
,
763
,
2347
,
2313
,
779
,
1805
,
2325
,
2332
,
2333
,
803
,
811
,
2353
,
2354
,
822
,
823
,
829
,
1854
,
1345
,
2370
,
836
,
1351
,
2383
,
1363
,
2399
,
1888
,
869
,
2406
,
872
,
2409
,
1388
,
2416
,
1342
,
886
,
1914
,
2431
,
896
,
1409
,
1416
,
2443
,
908
,
1936
,
2366
,
2453
,
2455
,
921
,
931
,
1447
,
1971
,
2487
,
1070
,
955
,
2493
,
2494
,
2495
,
1986
,
966
,
971
,
2000
,
1501
,
2025
,
2032
,
1529
])
region_2
=
set
([
1025
,
2050
,
918
,
1793
,
2314
,
907
,
1036
,
1282
,
2446
,
1069
,
2221
,
1970
,
2371
,
1686
,
1689
,
2074
,
2203
,
1309
,
2334
,
2463
,
1954
,
1122
,
1320
,
1577
,
973
,
1837
,
1101
,
2095
,
1969
,
1229
,
1391
,
1972
,
1455
,
2358
,
1335
,
2233
,
2143
,
2364
,
2365
,
2113
,
1475
,
965
,
1094
,
780
,
1740
,
717
,
781
,
2128
,
1492
,
981
,
1750
,
2127
,
1164
,
1629
,
863
,
1869
,
2256
,
1890
,
2275
,
2021
,
1382
,
2279
,
2410
,
1832
,
742
,
879
,
1197
,
2162
,
852
,
1876
,
1786
,
1662
,
1125
])
region_3
=
set
([
1410
,
1796
,
2054
,
1419
,
1368
,
1938
,
1302
,
1305
,
1828
,
1461
,
2164
,
1215
,
1217
,
1219
,
2122
,
1877
,
1880
,
1759
,
2144
,
2022
,
1255
,
2026
,
1139
,
1396
,
1142
,
2169
,
1471
,
1514
])
region_4
=
set
([
2432
,
1540
,
1801
,
1039
,
1680
,
1048
,
1554
,
2196
,
1688
,
922
,
1821
,
2215
,
2348
,
690
,
1589
,
1601
,
1093
,
1482
,
975
,
1748
,
854
,
2264
,
1630
,
1383
,
2287
,
1652
,
1531
])
region_5
=
set
([
1408
,
1922
,
1283
,
1924
,
1797
,
1798
,
1582
,
1167
,
1496
,
1426
,
1555
,
2008
,
1326
,
1434
,
1947
,
1923
,
1565
,
1925
,
1696
,
1442
,
2075
,
1189
,
2087
,
1449
,
1834
,
1581
,
1838
,
1839
,
1845
,
1334
,
1592
,
1722
,
1213
,
1483
,
2116
,
1771
,
1864
,
1995
,
1357
,
1946
,
2027
,
1616
,
1617
,
1751
,
1624
,
1625
,
1498
,
1499
,
2013
,
1829
,
1760
,
1378
,
1252
,
1254
,
2023
,
1386
,
2155
,
1647
,
1141
,
1654
,
1892
,
1532
,
1789
,
1790
,
1663
])
def
region1_t39
(
linss
):
d
=
lin
.
invertMap
(
linss
[(
39
,
47
)])
return
set
([
d
[
cid
]
for
cid
in
region_1
])
def
region2_t39
(
linss
):
d
=
lin
.
invertMap
(
linss
[(
39
,
47
)])
return
set
([
d
[
cid
]
for
cid
in
region_2
])
def
region3_t39
(
linss
):
d
=
lin
.
invertMap
(
linss
[(
39
,
47
)])
return
set
([
d
[
cid
]
for
cid
in
region_3
])
def
region4_t39
(
linss
):
d
=
lin
.
invertMap
(
linss
[(
39
,
47
)])
return
set
([
d
[
cid
]
for
cid
in
region_4
])
def
region5_t39
(
linss
):
d
=
lin
.
invertMap
(
linss
[(
39
,
47
)])
return
set
([
d
[
cid
]
for
cid
in
region_5
])
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