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Bentriou Mahmoud
MarkovProcesses.jl
Commits
9e57c693
Commit
9e57c693
authored
Feb 08, 2021
by
Bentriou Mahmoud
Browse files
new model intracellular viral infection + smc_chernoff
parent
40cf91a4
Changes
3
Hide whitespace changes
Inline
Side-by-side
core/MarkovProcesses.jl
View file @
9e57c693
...
...
@@ -29,7 +29,7 @@ export get_index, get_value, length_var, isaccepted
# Model related methods
export
simulate
,
volatile_simulate
export
distribute_mean_value_lha
,
mean_value_lha
,
distribute_prob_accept_lha
,
probability_var_value_lha
export
distribute_mean_value_lha
,
mean_value_lha
,
distribute_prob_accept_lha
,
probability_var_value_lha
,
smc_chernoff
export
set_param!
,
set_x0!
,
set_time_bound!
,
set_observed_var!
,
observe_all!
export
get_param
,
get_x0
,
getproperty
,
get_proba_model
,
get_observed_var
export
isbounded
,
isaccepted
,
check_consistency
...
...
core/model.jl
View file @
9e57c693
...
...
@@ -402,6 +402,13 @@ function probability_var_value_lha(sm::SynchronizedModel, nbr_sim::Int;
return
sum_val
/
nbr_sim
end
function
smc_chernoff
(
sm
::
SynchronizedModel
;
approx
::
Float64
=
0.01
,
confidence
::
Float64
=
0.99
)
@assert
sm
.
automaton
.
name
in
[
"F property"
,
"G property"
,
"G and F property"
]
nbr_sim
=
log
(
2
/
(
1
-
confidence
))
/
(
2
*
approx
^
2
)
nbr_sim
=
convert
(
Int
,
trunc
(
nbr_sim
)
+
1
)
@show
nbr_sim
return
probability_var_value_lha
(
sm
,
nbr_sim
)
end
function
distribute_prob_accept_lha
(
sm
::
SynchronizedModel
,
nbr_sim
::
Int
)
sum_val
=
@distributed
(
+
)
for
i
=
1
:
nbr_sim
...
...
models/intracellular_viral_infection.jl
0 → 100644
View file @
9e57c693
intracellular_viral_infection
=
@network_model
begin
R1
:
(
N
+
T
=>
G
+
T
,
k1
*
T
*
cn
)
R2
:
(
N
+
G
=>
T
,
k2
*
G
*
cn
)
R3
:
(
N
+
A
+
T
=>
S
+
T
,
k3
*
T
*
cn
*
ca
)
R4
:
(
T
=>
∅
,
k4
*
T
)
R5
:
(
S
=>
∅
,
k5
*
S
)
R6
:
(
G
+
S
=>
V
,
k6
*
G
*
S
)
end
"Intracellular viral infection pkg"
set_x0!
(
intracellular_viral_infection
,
[
:
N
,
:
A
,
:
G
,
:
T
,
:
S
,
:
V
],
[
10000
,
10000
,
0
,
1
,
0
,
0
])
set_param!
(
intracellular_viral_infection
,
[
:
cn
,
:
ca
,
:
k1
,
:
k2
,
:
k3
,
:
k4
,
:
k5
,
:
k6
],
[
1.0
,
1.0
,
1.0
,
0.025
,
100.0
,
0.25
,
0.2
,
7.5E-6
])
set_time_bound!
(
intracellular_viral_infection
,
200.0
)
export
intracellular_viral_infection
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