Skip to content

Commit 2e2420c

Browse files
stephanmgstephanmg
authored
Visualization fixes for some benchmark models. (#289)
* Update xLabel for Zheng_PNAS2012 * Fix math rendering for Sneyd_PNAS2002 * Add xLabel for Okuonghae_ChaosSolitonsFractals2020, Giordano_Nature2020 * Update xLabel for Brannmark_JBC2010
1 parent 69eda24 commit 2e2420c

File tree

5 files changed

+38
-38
lines changed

5 files changed

+38
-38
lines changed

‎Benchmark-Models/Brannmark_JBC2010/visualizationSpecification_Brannmark_JBC2010.tsv‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -1,5 +1,5 @@
11
plotId plotTypeData plotName plotTypeSimulation xLabel xScale yLabel yScale yValues xValues xOffset yOffset datasetId
2-
plot1 MeanAndSD LinePlot time [min] lin IR phosphorylation lin IR1_P time 0 0 Dose_100
3-
plot2 MeanAndSD LinePlot time [min] lin IRS1 phosphorylation lin IRS1_P time 0 0 Dose_100
2+
plot1 MeanAndSD LinePlot Time [min] lin IR phosphorylation lin IR1_P time 0 0 Dose_100
3+
plot2 MeanAndSD LinePlot Time [min] lin IRS1 phosphorylation lin IRS1_P time 0 0 Dose_100
44
plot3 MeanAndSD LinePlot Insulin [nM] log10 IRS1 phosphorylation lin IRS1_P_DosR insulin_dose_1 0 0 DosR
5-
plot4 MeanAndSD LinePlot time [min] lin IRS1 phosphorylation lin IRS1_P time 0 0 TwoSteps
5+
plot4 MeanAndSD LinePlot Time [min] lin IRS1 phosphorylation lin IRS1_P time 0 0 TwoSteps

‎Benchmark-Models/Giordano_Nature2020/visualizationSpecification_Giordano_Nature2020.tsv‎

Lines changed: 8 additions & 8 deletions
Original file line numberDiff line numberDiff line change
@@ -1,8 +1,8 @@
1-
plotId plotName plotTypeSimulation xValues yValues yLabel legendEntry xScale yScale datasetId
2-
TotalDiagnosedCases Data vs Sim TotalDiagnosedCases Data vs Sim LinePlot time observable_TotalCases TotalCases TotalCases lin lin test
3-
Deaths Data vs Sim Deaths Data vs Sim LinePlot time observable_Deaths Deaths Deaths lin lin test
4-
Recovered Data vs Sim Recovered Data vs Sim LinePlot time observable_Recovered Recovered Recovered lin lin test
5-
CurrentDiagnosedCases Data vs Sim CurrentDiagnosedCases Data vs Sim LinePlot time observable_CurrentCases CurrentCases CurrentCases lin lin test
6-
Diagnosed Data vs Sim Diagnosed Data vs Sim LinePlot time observable_DiagHome Diagnosed Diagnosed lin lin test
7-
Recognized Data vs Sim Recognized Data vs Sim LinePlot time observable_Hospit Recognized Recognized lin lin test
8-
Threatened Data vs Sim Threatened Data vs Sim LinePlot time observable_ICU Threatened Threatened lin lin test
1+
plotId plotName plotTypeSimulation xValues yValues yLabel legendEntry xScale yScale datasetId xLabel
2+
TotalDiagnosedCases Data vs Sim TotalDiagnosedCases Data vs Sim LinePlot time observable_TotalCases TotalCases TotalCases lin lin test Time [days]
3+
Deaths Data vs Sim Deaths Data vs Sim LinePlot time observable_Deaths Deaths Deaths lin lin test Time [days]
4+
Recovered Data vs Sim Recovered Data vs Sim LinePlot time observable_Recovered Recovered Recovered lin lin test Time[days]
5+
CurrentDiagnosedCases Data vs Sim CurrentDiagnosedCases Data vs Sim LinePlot time observable_CurrentCases CurrentCases CurrentCases lin lin test Time [days]
6+
Diagnosed Data vs Sim Diagnosed Data vs Sim LinePlot time observable_DiagHome Diagnosed Diagnosed lin lin test Time [days]
7+
Recognized Data vs Sim Recognized Data vs Sim LinePlot time observable_Hospit Recognized Recognized lin lin test Time [days]
8+
Threatened Data vs Sim Threatened Data vs Sim LinePlot time observable_ICU Threatened Threatened lin lin test Time [days]

‎Benchmark-Models/Okuonghae_ChaosSolitonsFractals2020/visualizationSpecification_Okuonghae_ChaosSolitonsFractals2020.tsv‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -1,3 +1,3 @@
1-
plotId plotTypeSimulation xValues yValues yLabel datasetId legendEntry
2-
ActiveCases Sim vs Data LinePlot time observable_ActiveCases Number of Active Cases id1 Activecases
3-
Cumulative Sim vs Data LinePlot time observable_Cumulative Number of Cumulative Cases id1 CumCases
1+
plotId plotTypeSimulation xValues yValues yLabel datasetId legendEntry xLabel
2+
ActiveCases Sim vs Data LinePlot time observable_ActiveCases Number of Active Cases id1 Activecases Time [days]
3+
Cumulative Sim vs Data LinePlot time observable_Cumulative Number of Cumulative Cases id1 CumCases Time [days]

‎Benchmark-Models/Sneyd_PNAS2002/visualizationSpecification_Sneyd_PNAS2002.tsv‎

Lines changed: 9 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -1,10 +1,10 @@
11
plotId plotTypeData plotName plotTypeSimulation xLabel xScale yLabel yScale datasetId legendEntry yValues xValues xOffset yOffset
2-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__1_open_probability 10 μM IP_3, 0.1 μM Ca^{2+} - open_probability open_probability time 0 0
3-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__2_open_probability 10 μM IP_3, 0.2 μM Ca^{2+} - open_probability open_probability time 0 0
4-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__3_open_probability 10 μM IP_3, 0.4 μM Ca^{2+} - open_probability open_probability time 0 0
5-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__4_open_probability 10 μM IP_3, 1 μM Ca^{2+} - open_probability open_probability time 0 0
6-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__5_open_probability 10 μM IP_3, 3 μM Ca^{2+} - open_probability open_probability time 0 0
7-
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__6_open_probability 10 μM IP_3, 10 μM Ca^{2+} - open_probability open_probability time 0 0
8-
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__1_open_probability 3 μM IP_3, 0.4 μM Ca^{2+} - open_probability open_probability time 0 0
9-
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__2_open_probability 5 μM IP_3, 0.4 μM Ca^{2+} - open_probability open_probability time 0 0
10-
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__3_open_probability 10 μM IP_3, 0.4 μM Ca^{2+} - open_probability open_probability time 0 0
2+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__1_open_probability 10 μM IP_3, 0.1 μM $Ca^{2+}$ - open_probability open_probability time 0 0
3+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__2_open_probability 10 μM IP_3, 0.2 μM $Ca^{2+}$ - open_probability open_probability time 0 0
4+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__3_open_probability 10 μM IP_3, 0.4 μM $Ca^{2+}$ - open_probability open_probability time 0 0
5+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__4_open_probability 10 μM IP_3, 1 μM $Ca^{2+}$ - open_probability open_probability time 0 0
6+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__5_open_probability 10 μM IP_3, 3 μM $Ca^{2+}$ - open_probability open_probability time 0 0
7+
plot1 MeanAndSD LinePlot time [s] lin open probability lin Ca_dose_response__6_open_probability 10 μM IP_3, 10 μM $Ca^{2+}$ - open_probability open_probability time 0 0
8+
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__1_open_probability 3 μM IP_3, 0.4 μM $Ca^{2+}$ - open_probability open_probability time 0 0
9+
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__2_open_probability 5 μM IP_3, 0.4 μM $Ca^{2+}$ - open_probability open_probability time 0 0
10+
plot2 MeanAndSD LinePlot time [s] lin open probability lin IP3_dose_response__3_open_probability 10 μM IP_3, 0.4 μM $Ca^{2+}$ - open_probability open_probability time 0 0

‎Benchmark-Models/Zheng_PNAS2012/visualizationSpecification_Zheng_PNAS2012.tsv‎

Lines changed: 15 additions & 15 deletions
Original file line numberDiff line numberDiff line change
@@ -1,16 +1,16 @@
11
plotId plotTypeData plotTypeSimulation xLabel xScale yLabel yScale legendEntry yValues xValues xOffset yOffset
2-
plot1 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me0K36me0 observable_K27me0K36me0 time 0 0
3-
plot2 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me0K36me1 observable_K27me0K36me1 time 0 0
4-
plot3 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me1K36me0 observable_K27me1K36me0 time 0 0
5-
plot4 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me0K36me2 observable_K27me0K36me2 time 0 0
6-
plot5 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me1K36me1 observable_K27me1K36me1 time 0 0
7-
plot6 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me2K36me0 observable_K27me2K36me0 time 0 0
8-
plot7 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me0K36me3 observable_K27me0K36me3 time 0 0
9-
plot8 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me1K36me2 observable_K27me1K36me2 time 0 0
10-
plot9 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me2K36me1 observable_K27me2K36me1 time 0 0
11-
plot10 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me3K36me0 observable_K27me3K36me0 time 0 0
12-
plot11 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me1K36me3 observable_K27me1K36me3 time 0 0
13-
plot12 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me2K36me2 observable_K27me2K36me2 time 0 0
14-
plot13 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me3K36me1 observable_K27me3K36me1 time 0 0
15-
plot14 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me2K36me3 observable_K27me2K36me3 time 0 0
16-
plot15 MeanAndSD LinePlot time lin values lin simCondition - observable_K27me3K36me2 observable_K27me3K36me2 time 0 0
2+
plot1 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me0K36me0 observable_K27me0K36me0 time 0 0
3+
plot2 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me0K36me1 observable_K27me0K36me1 time 0 0
4+
plot3 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me1K36me0 observable_K27me1K36me0 time 0 0
5+
plot4 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me0K36me2 observable_K27me0K36me2 time 0 0
6+
plot5 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me1K36me1 observable_K27me1K36me1 time 0 0
7+
plot6 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me2K36me0 observable_K27me2K36me0 time 0 0
8+
plot7 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me0K36me3 observable_K27me0K36me3 time 0 0
9+
plot8 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me1K36me2 observable_K27me1K36me2 time 0 0
10+
plot9 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me2K36me1 observable_K27me2K36me1 time 0 0
11+
plot10 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me3K36me0 observable_K27me3K36me0 time 0 0
12+
plot11 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me1K36me3 observable_K27me1K36me3 time 0 0
13+
plot12 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me2K36me2 observable_K27me2K36me2 time 0 0
14+
plot13 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me3K36me1 observable_K27me3K36me1 time 0 0
15+
plot14 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me2K36me3 observable_K27me2K36me3 time 0 0
16+
plot15 MeanAndSD LinePlot Time [s] lin values lin simCondition - observable_K27me3K36me2 observable_K27me3K36me2 time 0 0

0 commit comments

Comments
 (0)