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Saralamba2.cdf
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(* Content-type: application/vnd.wolfram.cdf.text *)
(*** Wolfram CDF File ***)
(* http://www.wolfram.com/cdf *)
(* CreatedBy='Mathematica 10.4' *)
(*************************************************************************)
(* *)
(* The Mathematica License under which this file was created prohibits *)
(* restricting third parties in receipt of this file from republishing *)
(* or redistributing it by any means, including but not limited to *)
(* rights management or terms of use, without the express consent of *)
(* Wolfram Research, Inc. For additional information concerning CDF *)
(* licensing and redistribution see: *)
(* *)
(* www.wolfram.com/cdf/adopting-cdf/licensing-options.html *)
(* *)
(*************************************************************************)
(*CacheID: 234*)
(* Internal cache information:
NotebookFileLineBreakTest
NotebookFileLineBreakTest
NotebookDataPosition[ 1064, 20]
NotebookDataLength[ 32243, 659]
NotebookOptionsPosition[ 32809, 655]
NotebookOutlinePosition[ 33247, 674]
CellTagsIndexPosition[ 33204, 671]
WindowFrame->Normal*)
(* Beginning of Notebook Content *)
Notebook[{
Cell[BoxData[
TagBox[
StyleBox[
DynamicModuleBox[{$CellContext`ctrl$$ = 1, $CellContext`ec50R$$ =
20.5, $CellContext`ec50S$$ = 20.5, $CellContext`ec50T$$ =
20.5, $CellContext`emaxR$$ = 99.99, $CellContext`emaxS$$ =
99.99, $CellContext`emaxT$$ = 99.99, $CellContext`everyH$$ =
24, $CellContext`initN$$ = 2.8*^11, $CellContext`ke$$ =
0.5, $CellContext`KZRB$$ = 6, $CellContext`KZRE$$ =
26, $CellContext`KZSE$$ = 44, $CellContext`KZTE$$ =
38, $CellContext`Ndrug$$ = 7, $CellContext`PMR$$ = 7, $CellContext`T$$ =
5., $CellContext`xm$$ = 2, $CellContext`ym$$ =
1000, $CellContext`\[Gamma]R$$ = 6.5, $CellContext`\[Gamma]S$$ =
6.5, $CellContext`\[Gamma]T$$ = 6.5, $CellContext`\[Mu]$$ =
10, $CellContext`\[Sigma]$$ = 4, Typeset`show$$ = True,
Typeset`bookmarkList$$ = {}, Typeset`bookmarkMode$$ = "Menu",
Typeset`animator$$, Typeset`animvar$$ = 1, Typeset`name$$ =
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Dynamic[$CellContext`KZTE$$ + 1], 100, 1}, {{
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Hold[$CellContext`T$$], 5., ""}, 1., 10., 0.001}, {
Hold[
PaneSelector[{1 -> Column[{
Style["Parasite distribution on admission", Bold],
"initial number of parasites",
Manipulate`Place[1], "parasite multiplication rate (/48 hours)",
Manipulate`Place[2], "mean age of parasite (hours)",
Manipulate`Place[3],
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Manipulate`Place[4]}], 2 -> Column[{
Style["Dose regimen", Bold], "number of doses",
Manipulate`Place[5], "dosing interval (hours)",
Manipulate`Place[6]}], 3 -> Column[{
Style["DHA concentration profile (for each dose)", Bold],
"time at max concentration (hours)",
Manipulate`Place[7], "max concentration (ng/ml)",
Manipulate`Place[8], "elimination rate (/hours)",
Manipulate`Place[9]}], 4 -> Column[{
Style["Kill zones (sensitive ages) ", Bold],
"ring: begin kill zone (hours)",
Manipulate`Place[10], "ring: end kill zone (hours)",
Manipulate`Place[11], "trophozoite: end kill zone (hours)",
Manipulate`Place[12], "schizont: end kill zone (hours)",
Manipulate`Place[13]}], 5 -> Column[{
Style["Killing effect parameters", Bold],
Manipulate`Place[14],
Manipulate`Place[15],
Manipulate`Place[16], "EC50 ring (ng/ml)",
Manipulate`Place[17], "EC50 trophozoites (ng/ml)",
Manipulate`Place[18], "EC50 schizont (ng/ml)",
Manipulate`Place[19], "ring: max efficacy (%)",
Manipulate`Place[20], "trophozoite: max efficacy (%)",
Manipulate`Place[21], "schizont: max efficacy (%)",
Manipulate`Place[22], "1/alpha",
Manipulate`Place[23]}]},
Dynamic[$CellContext`ctrl$$]]], Manipulate`Dump`ThisIsNotAControl}},
Typeset`size$$ = Automatic, Typeset`update$$ = 0, Typeset`initDone$$,
Typeset`skipInitDone$$ = False, $CellContext`ctrl$168975$$ =
False, $CellContext`initN$168976$$ = 0, $CellContext`PMR$168977$$ =
0, $CellContext`\[Mu]$168978$$ = 0, $CellContext`\[Sigma]$168979$$ =
0, $CellContext`Ndrug$168980$$ = 0, $CellContext`everyH$168981$$ =
0, $CellContext`xm$168982$$ = 0, $CellContext`ym$168983$$ =
0, $CellContext`ke$168984$$ = 0, $CellContext`KZRB$168985$$ = 0},
DynamicBox[Manipulate`ManipulateBoxes[
2, StandardForm,
"Variables" :> {$CellContext`ctrl$$ = 1, $CellContext`ec50R$$ =
20.5, $CellContext`ec50S$$ = 20.5, $CellContext`ec50T$$ =
20.5, $CellContext`emaxR$$ = 99.99, $CellContext`emaxS$$ =
99.99, $CellContext`emaxT$$ = 99.99, $CellContext`everyH$$ =
24, $CellContext`initN$$ = 2.8*^11, $CellContext`ke$$ =
0.5, $CellContext`KZRB$$ = 6, $CellContext`KZRE$$ =
26, $CellContext`KZSE$$ = 44, $CellContext`KZTE$$ =
38, $CellContext`Ndrug$$ = 7, $CellContext`PMR$$ =
7, $CellContext`T$$ = 5., $CellContext`xm$$ = 2, $CellContext`ym$$ =
1000, $CellContext`\[Gamma]R$$ = 6.5, $CellContext`\[Gamma]S$$ =
6.5, $CellContext`\[Gamma]T$$ = 6.5, $CellContext`\[Mu]$$ =
10, $CellContext`\[Sigma]$$ = 4}, "ControllerVariables" :> {
Hold[$CellContext`ctrl$$, $CellContext`ctrl$168975$$, False],
Hold[$CellContext`initN$$, $CellContext`initN$168976$$, 0],
Hold[$CellContext`PMR$$, $CellContext`PMR$168977$$, 0],
Hold[$CellContext`\[Mu]$$, $CellContext`\[Mu]$168978$$, 0],
Hold[$CellContext`\[Sigma]$$, $CellContext`\[Sigma]$168979$$, 0],
Hold[$CellContext`Ndrug$$, $CellContext`Ndrug$168980$$, 0],
Hold[$CellContext`everyH$$, $CellContext`everyH$168981$$, 0],
Hold[$CellContext`xm$$, $CellContext`xm$168982$$, 0],
Hold[$CellContext`ym$$, $CellContext`ym$168983$$, 0],
Hold[$CellContext`ke$$, $CellContext`ke$168984$$, 0],
Hold[$CellContext`KZRB$$, $CellContext`KZRB$168985$$, 0]},
"OtherVariables" :> {
Typeset`show$$, Typeset`bookmarkList$$, Typeset`bookmarkMode$$,
Typeset`animator$$, Typeset`animvar$$, Typeset`name$$,
Typeset`specs$$, Typeset`size$$, Typeset`update$$, Typeset`initDone$$,
Typeset`skipInitDone$$}, "Body" :> Column[{
$CellContext`ParaDist[$CellContext`initN$$,
48, $CellContext`\[Mu]$$, $CellContext`\[Sigma]$$],
$CellContext`DHAGraph[$CellContext`xm$$, $CellContext`ym$$, \
$CellContext`a, $CellContext`ke$$],
$CellContext`ParaGraph[$CellContext`initN$$, $CellContext`PMR$$, \
$CellContext`\[Mu]$$, $CellContext`\[Sigma]$$,
48, {{$CellContext`KZRB$$, $CellContext`KZRE$$}, \
{$CellContext`KZRE$$ + 1, $CellContext`KZTE$$}, {$CellContext`KZTE$$ +
1, $CellContext`KZSE$$}}, {$CellContext`xm$$, $CellContext`ym$$, \
$CellContext`a, $CellContext`ke$$}, $CellContext`everyH$$, \
$CellContext`Ndrug$$, {$CellContext`\[Gamma]R$$, $CellContext`\[Gamma]T$$, \
$CellContext`\[Gamma]S$$}, {$CellContext`ec50R$$, $CellContext`ec50T$$, \
$CellContext`ec50S$$}, {0., 0.,
0.}, {$CellContext`emaxR$$, $CellContext`emaxT$$, \
$CellContext`emaxS$$}, $CellContext`T$$, 120]}],
"Specifications" :> {{{$CellContext`ctrl$$, 1, ""}, {
1 -> "parasite distribution", 2 -> "dose regimen", 3 ->
"DHA concentration", 4 -> "kill zones", 5 -> "killing effect"},
ControlPlacement -> Top}, {{$CellContext`initN$$, 2.8*^11, ""},
1.*^11, 1000000000000, 5.*^10, Appearance -> "Labeled", ImageSize ->
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Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
2}, {{$CellContext`\[Mu]$$, 10, ""}, 1, 48, 1, Appearance ->
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3}, {{$CellContext`\[Sigma]$$, 4, ""}, 1, 50, 1, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
4}, {{$CellContext`Ndrug$$, 7, ""}, 1, 24, 1, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
5}, {{$CellContext`everyH$$, 24, ""}, 1, 48, 1, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
6}, {{$CellContext`xm$$, 2, ""}, 1, 20, Appearance -> "Labeled",
ImageSize -> Tiny, ControlPlacement ->
7}, {{$CellContext`ym$$, 1000, ""}, 0.5, 2000., Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
8}, {{$CellContext`ke$$, 0.5, ""}, 0.001, 10, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
9}, {{$CellContext`KZRB$$, 6, ""}, 1, 96, 1, Appearance -> "Labeled",
ImageSize -> Tiny, ControlPlacement ->
10}, {{$CellContext`KZRE$$, 26, ""},
Dynamic[$CellContext`KZRB$$], 60, 1, Appearance -> "Labeled",
ImageSize -> Tiny, ControlPlacement ->
11}, {{$CellContext`KZTE$$, 38, ""},
Dynamic[$CellContext`KZRE$$ + 1], 90, 1, Appearance -> "Labeled",
ImageSize -> Tiny, ControlPlacement ->
12}, {{$CellContext`KZSE$$, 44, ""},
Dynamic[$CellContext`KZTE$$ + 1], 100, 1, Appearance -> "Labeled",
ImageSize -> Tiny, ControlPlacement ->
13}, {{$CellContext`\[Gamma]R$$, 6.5}, 0.5, 10, 0.001, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
14}, {{$CellContext`\[Gamma]T$$, 6.5}, 0.5, 10, 0.001, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
15}, {{$CellContext`\[Gamma]S$$, 6.5}, 0.5, 10, 0.001, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement ->
16}, {{$CellContext`ec50R$$, 20.5, ""}, 0.001, 100, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
17}, {{$CellContext`ec50T$$, 20.5, ""}, 0.001, 100, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
18}, {{$CellContext`ec50S$$, 20.5, ""}, 0.001, 100, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
19}, {{$CellContext`emaxR$$, 99.99, ""}, 50, 99.999, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
20}, {{$CellContext`emaxT$$, 99.99, ""}, 50, 99.999, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
21}, {{$CellContext`emaxS$$, 99.99, ""}, 50, 99.999, 0.001,
Appearance -> "Labeled", ImageSize -> Tiny, ControlPlacement ->
22}, {{$CellContext`T$$, 5., ""}, 1., 10., 0.001, Appearance ->
"Labeled", ImageSize -> Tiny, ControlPlacement -> 23},
PaneSelector[{1 -> Column[{
Style["Parasite distribution on admission", Bold],
"initial number of parasites",
Manipulate`Place[1], "parasite multiplication rate (/48 hours)",
Manipulate`Place[2], "mean age of parasite (hours)",
Manipulate`Place[3],
"standard deviation of parasite ages (hours)",
Manipulate`Place[4]}], 2 -> Column[{
Style["Dose regimen", Bold], "number of doses",
Manipulate`Place[5], "dosing interval (hours)",
Manipulate`Place[6]}], 3 -> Column[{
Style["DHA concentration profile (for each dose)", Bold],
"time at max concentration (hours)",
Manipulate`Place[7], "max concentration (ng/ml)",
Manipulate`Place[8], "elimination rate (/hours)",
Manipulate`Place[9]}], 4 -> Column[{
Style["Kill zones (sensitive ages) ", Bold],
"ring: begin kill zone (hours)",
Manipulate`Place[10], "ring: end kill zone (hours)",
Manipulate`Place[11], "trophozoite: end kill zone (hours)",
Manipulate`Place[12], "schizont: end kill zone (hours)",
Manipulate`Place[13]}], 5 -> Column[{
Style["Killing effect parameters", Bold],
Manipulate`Place[14],
Manipulate`Place[15],
Manipulate`Place[16], "EC50 ring (ng/ml)",
Manipulate`Place[17], "EC50 trophozoites (ng/ml)",
Manipulate`Place[18], "EC50 schizont (ng/ml)",
Manipulate`Place[19], "ring: max efficacy (%)",
Manipulate`Place[20], "trophozoite: max efficacy (%)",
Manipulate`Place[21], "schizont: max efficacy (%)",
Manipulate`Place[22], "1/alpha",
Manipulate`Place[23]}]},
Dynamic[$CellContext`ctrl$$]]},
"Options" :> {
ControlPlacement -> Left, SynchronousInitialization -> False,
ContinuousAction -> False, AutorunSequencing -> {1, 2}},
"DefaultOptions" :> {}],
ImageSizeCache->{626., {277., 284.}},
SingleEvaluation->True],
Deinitialization:>None,
DynamicModuleValues:>{},
Initialization:>({$CellContext`genpoints[
Pattern[$CellContext`xm,
Blank[]],
Pattern[$CellContext`ym,
Blank[]],
Pattern[$CellContext`ke,
Blank[]],
Pattern[$CellContext`x,
Blank[]]] :=
Piecewise[{{$CellContext`ym - ($CellContext`ym/$CellContext`xm) \
($CellContext`xm - $CellContext`x), $CellContext`x <= $CellContext`xm}, \
{$CellContext`ym
Exp[(-$CellContext`ke) ($CellContext`x - $CellContext`xm)], \
$CellContext`x > $CellContext`xm}}]; $CellContext`ConcMod[
Pattern[$CellContext`xm,
Blank[]],
Pattern[$CellContext`ym,
Blank[]],
Pattern[$CellContext`a,
Blank[]],
Pattern[$CellContext`ke,
Blank[]],
Pattern[$CellContext`everyH,
Blank[Integer]],
Pattern[$CellContext`Ndrug,
Blank[Integer]],
Pattern[$CellContext`gamma,
Blank[List]],
Pattern[$CellContext`ec50,
Blank[List]],
Pattern[$CellContext`emin,
Blank[List]],
Pattern[$CellContext`emax,
Blank[List]]] :=
Module[{$CellContext`i, $CellContext`j = 0, $CellContext`nd =
1, $CellContext`dat, $CellContext`maxpoint, $CellContext`part1, \
$CellContext`part2, $CellContext`fitke, $CellContext`modka, \
$CellContext`modke, $CellContext`fn, $CellContext`x, $CellContext`endtime, \
$CellContext`t, $CellContext`conc =
0, $CellContext`concls = {}, $CellContext`TIMEMAX = 1000},
For[$CellContext`i =
0, $CellContext`i < $CellContext`Ndrug $CellContext`everyH, \
$CellContext`i = $CellContext`i + 1,
If[$CellContext`j != $CellContext`everyH, $CellContext`conc =
ReplaceAll[
$CellContext`genpoints[$CellContext`xm, $CellContext`ym, \
$CellContext`ke, $CellContext`x], $CellContext`x -> $CellContext`j];
AppendTo[$CellContext`concls, {$CellContext`i, \
$CellContext`conc,
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 1],
Part[$CellContext`ec50, 1],
Part[$CellContext`emin, 1],
Part[$CellContext`emax, 1]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 2],
Part[$CellContext`ec50, 2],
Part[$CellContext`emin, 2],
Part[$CellContext`emax, 2]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 3],
Part[$CellContext`ec50, 3],
Part[$CellContext`emin, 3],
Part[$CellContext`emax, 3]]}]; Null]; If[
And[$CellContext`j == $CellContext`everyH, $CellContext`nd < \
$CellContext`Ndrug], $CellContext`nd = $CellContext`nd + 1; $CellContext`conc =
ReplaceAll[$CellContext`conc + \
$CellContext`genpoints[$CellContext`xm, $CellContext`ym, $CellContext`ke, \
$CellContext`x], $CellContext`x -> $CellContext`j];
AppendTo[$CellContext`concls, {$CellContext`i, \
$CellContext`conc,
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 1],
Part[$CellContext`ec50, 1],
Part[$CellContext`emin, 1],
Part[$CellContext`emax, 1]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 2],
Part[$CellContext`ec50, 2],
Part[$CellContext`emin, 2],
Part[$CellContext`emax, 2]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 3],
Part[$CellContext`ec50, 3],
Part[$CellContext`emin, 3],
Part[$CellContext`emax, 3]]}]; $CellContext`j = 0;
Null]; $CellContext`j = $CellContext`j + 1; Null];
For[$CellContext`i = $CellContext`Ndrug $CellContext`everyH; \
$CellContext`j = $CellContext`everyH, $CellContext`i <= $CellContext`TIMEMAX, \
$CellContext`i = $CellContext`i + 1, $CellContext`conc = ReplaceAll[
$CellContext`genpoints[$CellContext`xm, $CellContext`ym, \
$CellContext`ke, $CellContext`x], $CellContext`x -> $CellContext`j];
AppendTo[$CellContext`concls, {$CellContext`i, $CellContext`conc,
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 1],
Part[$CellContext`ec50, 1],
Part[$CellContext`emin, 1],
Part[$CellContext`emax, 1]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 2],
Part[$CellContext`ec50, 2],
Part[$CellContext`emin, 2],
Part[$CellContext`emax, 2]],
$CellContext`Eff[$CellContext`conc,
Part[$CellContext`gamma, 3],
Part[$CellContext`ec50, 3],
Part[$CellContext`emin, 3],
Part[$CellContext`emax,
3]]}]; $CellContext`j = $CellContext`j + 1;
Null]; $CellContext`concls]; $CellContext`DistributeN[
Pattern[$CellContext`initN,
Blank[]],
Pattern[$CellContext`LC,
Blank[Integer]],
Pattern[$CellContext`mu,
Blank[]],
Pattern[$CellContext`sigma,
Blank[]]] :=
Module[{$CellContext`distr, $CellContext`x}, $CellContext`distr =
Table[
N[
PDF[
NormalDistribution[$CellContext`mu, $CellContext`sigma], \
$CellContext`x]], {$CellContext`x, 1, $CellContext`LC}]; ($CellContext`initN/
Total[$CellContext`distr]) $CellContext`distr]; \
$CellContext`Shiftonehour[
Pattern[$CellContext`ls,
Blank[List]],
Pattern[$CellContext`PMR,
Blank[Integer]]] :=
Module[{$CellContext`tmp}, $CellContext`tmp = $CellContext`ls; \
$CellContext`tmp = RotateRight[$CellContext`tmp]; $CellContext`tmp =
ReplacePart[$CellContext`tmp, 1 ->
Part[$CellContext`tmp,
1] $CellContext`PMR]; $CellContext`tmp]; $CellContext`Eff[
Pattern[$CellContext`c,
Blank[]],
Pattern[$CellContext`gamma,
Blank[]],
Pattern[$CellContext`ec50,
Blank[]],
Pattern[$CellContext`emin,
Blank[]],
Pattern[$CellContext`emax,
Blank[]]] := $CellContext`emin + ($CellContext`emax - \
$CellContext`emin) \
($CellContext`c^$CellContext`gamma/($CellContext`c^$CellContext`gamma + \
$CellContext`ec50^$CellContext`gamma)); $CellContext`Ki[
Pattern[$CellContext`T,
Blank[Real]],
Pattern[$CellContext`concls,
Blank[List]]] :=
Module[{$CellContext`i, $CellContext`lsk}, $CellContext`lsk =
Table[{(1/$CellContext`T)
Log[100./(100. -
Part[$CellContext`concls, $CellContext`i, 3])], (
1/$CellContext`T)
Log[100./(100. -
Part[$CellContext`concls, $CellContext`i, 4])], (
1/$CellContext`T)
Log[100./(100. -
Part[$CellContext`concls, $CellContext`i,
5])]}, {$CellContext`i, 1,
Length[$CellContext`concls]}]; $CellContext`lsk]; \
$CellContext`Fdecay[
Pattern[$CellContext`ages,
Blank[]],
Pattern[$CellContext`lst,
Blank[]],
Pattern[$CellContext`attime,
Blank[]],
Pattern[$CellContext`lsk,
Blank[]],
Pattern[$CellContext`stages,
Blank[]]] :=
Module[{$CellContext`tmp, $CellContext`i}, $CellContext`i = \
$CellContext`ages; $CellContext`tmp = Part[$CellContext`lst, $CellContext`i];
If[Part[$CellContext`stages, $CellContext`i] == 1, $CellContext`tmp =
Part[$CellContext`lst, $CellContext`i]
Exp[-Part[$CellContext`lsk, $CellContext`attime, 1]]];
If[Part[$CellContext`stages, $CellContext`i] == 2, $CellContext`tmp =
Part[$CellContext`lst, $CellContext`i]
Exp[-Part[$CellContext`lsk, $CellContext`attime, 2]]];
If[Part[$CellContext`stages, $CellContext`i] == 3, $CellContext`tmp =
Part[$CellContext`lst, $CellContext`i]
Exp[-Part[$CellContext`lsk, $CellContext`attime,
3]]]; $CellContext`tmp]; $CellContext`WhichRTS[
Pattern[$CellContext`lst,
Blank[List]],
Pattern[$CellContext`KZ,
Blank[List]]] :=
Module[{$CellContext`i, $CellContext`tmp}, $CellContext`tmp =
Table[0, {
Length[$CellContext`lst]}];
For[$CellContext`i = 1, $CellContext`i <=
Length[$CellContext`lst], $CellContext`i = $CellContext`i + 1,
If[IntervalMemberQ[
Interval[
Part[$CellContext`KZ, 1]], $CellContext`i] ==
True, $CellContext`tmp =
ReplacePart[$CellContext`tmp, $CellContext`i -> 1]; Null];
If[IntervalMemberQ[
Interval[
Part[$CellContext`KZ, 2]], $CellContext`i] ==
True, $CellContext`tmp =
ReplacePart[$CellContext`tmp, $CellContext`i -> 2]; Null];
If[IntervalMemberQ[
Interval[
Part[$CellContext`KZ, 3]], $CellContext`i] ==
True, $CellContext`tmp =
ReplacePart[$CellContext`tmp, $CellContext`i -> 3]; Null];
Null]; $CellContext`tmp]; $CellContext`PRingFunc[
Pattern[$CellContext`i,
Blank[Integer]],
Pattern[$CellContext`a1,
Blank[Integer]],
Pattern[$CellContext`a2,
Blank[Integer]]] :=
Piecewise[{{1, $CellContext`i < $CellContext`a1}, {
Exp[
Log[0.5] (($CellContext`i - $CellContext`a1)/($CellContext`a2 - \
$CellContext`a1))], $CellContext`i >= $CellContext`a1}}]; $CellContext`LsDot[
Pattern[$CellContext`ls1,
Blank[List]],
Pattern[$CellContext`ls2,
Blank[
List]]] := $CellContext`ls1 $CellContext`ls2; \
$CellContext`ParasiteDynamics[
Pattern[$CellContext`initN,
Blank[]],
Pattern[$CellContext`PMR,
Blank[Integer]],
Pattern[$CellContext`mu,
Blank[]],
Pattern[$CellContext`sigma,
Blank[]],
Pattern[$CellContext`hours,
Blank[Integer]],
Pattern[$CellContext`KZ,
Blank[List]],
Pattern[$CellContext`concdat,
Blank[List]],
Pattern[$CellContext`everyH,
Blank[Integer]],
Pattern[$CellContext`Ndrug,
Blank[Integer]],
Pattern[$CellContext`gamma,
Blank[List]],
Pattern[$CellContext`ec50,
Blank[List]],
Pattern[$CellContext`emin,
Blank[List]],
Pattern[$CellContext`emax,
Blank[List]],
Pattern[$CellContext`T,
Blank[Real]],
Pattern[$CellContext`runMax,
Blank[Integer]]] :=
Module[{$CellContext`runs =
True, $CellContext`stages, $CellContext`concls, $CellContext`i, \
$CellContext`j, $CellContext`lst, $CellContext`lsk, $CellContext`output = {}, \
$CellContext`xm, $CellContext`ym, $CellContext`a, $CellContext`ke, \
$CellContext`junk, $CellContext`onlyring, $CellContext`tot}, $CellContext`xm =
Part[$CellContext`concdat, 1]; $CellContext`ym =
Part[$CellContext`concdat, 2]; $CellContext`a =
Part[$CellContext`concdat, 3]; $CellContext`ke =
Part[$CellContext`concdat,
4]; $CellContext`concls = $CellContext`ConcMod[$CellContext`xm, \
$CellContext`ym, $CellContext`a, $CellContext`ke, $CellContext`everyH, \
$CellContext`Ndrug, $CellContext`gamma, $CellContext`ec50, $CellContext`emin, \
$CellContext`emax]; $CellContext`lsk = $CellContext`Ki[$CellContext`T, \
$CellContext`concls]; $CellContext`lst = \
$CellContext`DistributeN[$CellContext`initN, $CellContext`hours, \
$CellContext`mu, $CellContext`sigma]; $CellContext`stages = \
$CellContext`WhichRTS[$CellContext`lst, $CellContext`KZ];
AppendTo[$CellContext`output, $CellContext`lst]; $CellContext`i = 0;
While[
And[$CellContext`runs ==
True, $CellContext`i < $CellContext`runMax], $CellContext`i = \
$CellContext`i +
1; $CellContext`lst = \
$CellContext`Shiftonehour[$CellContext`lst, $CellContext`PMR];
For[$CellContext`j = 1, $CellContext`j <=
Length[$CellContext`lst], $CellContext`j = $CellContext`j +
1, $CellContext`lst =
ReplacePart[$CellContext`lst, $CellContext`j -> \
$CellContext`Fdecay[$CellContext`j, $CellContext`lst, $CellContext`i, \
$CellContext`lsk, $CellContext`stages]]; Null];
AppendTo[$CellContext`output, $CellContext`lst];
Null]; $CellContext`junk = Map[$CellContext`LsDot[#,
Table[
$CellContext`PRingFunc[$CellContext`i, 11,
14], {$CellContext`i,
1, $CellContext`hours}]]& , $CellContext`output]; \
$CellContext`onlyring = Table[{$CellContext`i - 1,
Log10[
Total[
Part[$CellContext`junk, $CellContext`i]]]}, {$CellContext`i,
1,
Length[$CellContext`junk]}]; $CellContext`tot =
Table[{$CellContext`i - 1,
Log10[
Total[
Part[$CellContext`output, $CellContext`i]]]}, {$CellContext`i,
1,
Length[$CellContext`output]}]; {$CellContext`onlyring, \
$CellContext`tot}]; $CellContext`ParaDist[
Pattern[$CellContext`initN,
Blank[]],
Pattern[$CellContext`LC,
Blank[]],
Pattern[$CellContext`mu,
Blank[]],
Pattern[$CellContext`sigma,
Blank[]]] := ListLogPlot[
$CellContext`DistributeN[$CellContext`initN, $CellContext`LC, \
$CellContext`mu, $CellContext`sigma], Filling -> Axis,
ImageSize -> {350, 150}, Frame -> {True, True, False, False},
FrameLabel -> {"age of parasites (h)", "number of parasites"},
PlotStyle -> {Orange}]; $CellContext`DHAGraph[
Pattern[$CellContext`xm,
Blank[]],
Pattern[$CellContext`ym,
Blank[]],
Pattern[$CellContext`a,
Blank[]],
Pattern[$CellContext`ke,
Blank[]]] :=
Module[{$CellContext`points, $CellContext`t}, $CellContext`points =
Table[{$CellContext`t,
$CellContext`genpoints[$CellContext`xm, $CellContext`ym, \
$CellContext`ke, $CellContext`t]}, {$CellContext`t, 0, 20, 0.1}];
ListPlot[$CellContext`points, Joined -> True, PlotRange -> All,
Frame -> {True, True, False, False},
FrameLabel -> {"time (h)", "DHA concentration (ng/ml)"},
PlotStyle -> {Red, Thick},
ImageSize -> {350, 150}]]; $CellContext`ParaGraph[
Pattern[$CellContext`initN,
Blank[]],
Pattern[$CellContext`PMR,
Blank[Integer]],
Pattern[$CellContext`mu,
Blank[]],
Pattern[$CellContext`sigma,
Blank[]],
Pattern[$CellContext`hours,
Blank[Integer]],
Pattern[$CellContext`KZ,
Blank[List]],
Pattern[$CellContext`concdat,
Blank[List]],
Pattern[$CellContext`everyH,
Blank[Integer]],
Pattern[$CellContext`Ndrug,
Blank[Integer]],
Pattern[$CellContext`gamma,
Blank[List]],
Pattern[$CellContext`ec50,
Blank[List]],
Pattern[$CellContext`emin,
Blank[List]],
Pattern[$CellContext`emax,
Blank[List]],
Pattern[$CellContext`T,
Blank[Real]],
Pattern[$CellContext`runMax,
Blank[Integer]]] := ListPlot[
$CellContext`ParasiteDynamics[$CellContext`initN, $CellContext`PMR, \
$CellContext`mu, $CellContext`sigma, $CellContext`hours, $CellContext`KZ, \
$CellContext`concdat, $CellContext`everyH, $CellContext`Ndrug, \
$CellContext`gamma, $CellContext`ec50, $CellContext`emin, $CellContext`emax, \
$CellContext`T, $CellContext`runMax], Frame -> {True, True, False, False},
FrameLabel -> {"time (h)", "# of parasites (log 10)"},
Joined -> {True, True}, ImageSize -> {350, 160},
PlotStyle -> {{Blue, Thick}, {Gray, Thick, Dashed}},
PlotRange -> {{0, 125}, {0, 13}}, PlotLegends ->
Placed[{"Circulating", "Circulating +\n Sequestered"}, {
Right, Center}]]}; Typeset`initDone$$ = True),
SynchronousInitialization->False,
UndoTrackedVariables:>{Typeset`show$$, Typeset`bookmarkMode$$},
UnsavedVariables:>{Typeset`initDone$$},
UntrackedVariables:>{Typeset`size$$}], "Manipulate",
Deployed->True,
StripOnInput->False],
Manipulate`InterpretManipulate[1]]], "Output"]
},
WindowSize->{759, 835},
Visible->True,
ScrollingOptions->{"VerticalScrollRange"->Fit},
ShowCellBracket->Automatic,
CellContext->Notebook,
TrackCellChangeTimes->False,
FrontEndVersion->"10.4 for Microsoft Windows (64-bit) (February 25, 2016)",
StyleDefinitions->"Default.nb"
]
(* End of Notebook Content *)
(* Internal cache information *)
(*CellTagsOutline
CellTagsIndex->{}
*)
(*CellTagsIndex
CellTagsIndex->{}
*)
(*NotebookFileOutline
Notebook[{
Cell[1464, 33, 31341, 620, 578, "Output"]
}
]
*)
(* End of internal cache information *)
(* NotebookSignature TxD2PALLQB8hjAKh8x76#u7S *)