Download Master Thesis semanticSBML a Tool for Creating, Checking

List of Figures
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
Comparison of two glycolysis models . . . . . . . . . . . . . . . .
Model-view-controller design pattern in semanticSBML . . . . .
semanticSBML merge concept model abstraction . . . . . . . . .
Screenshot - Sourcecode documentation with Epydoc . . . . . . .
Simplified class diagram of the API . . . . . . . . . . . . . . . . .
Screenshot - Model creation GUI . . . . . . . . . . . . . . . . . .
Model creation class diagram . . . . . . . . . . . . . . . . . . . .
Screenshot - SBMLmerge merge GUI conflict resolution . . . . .
Screenshot - SBMLmerge merge GUI resolution of circular rules .
Merge GUI class diagram . . . . . . . . . . . . . . . . . . . . . .
Console user interface class diagram . . . . . . . . . . . . . . . .
Screenshot - semanticSBML on Ubuntu Linux . . . . . . . . . . .
Screenshot - semanticSBML on OS X . . . . . . . . . . . . . . .
Screenshot - semanticSBML on Microsoft Windows . . . . . . . .
New annotation concept . . . . . . . . . . . . . . . . . . . . . . .
New annotation algorithm class diagram . . . . . . . . . . . . . .
Screenshot - New annotation GUI . . . . . . . . . . . . . . . . .
New merge concept cartoon part 1 . . . . . . . . . . . . . . . . .
New merge concept cartoon part 2 . . . . . . . . . . . . . . . . .
New merge concept cartoon part 3 . . . . . . . . . . . . . . . . .
New merge concept cartoon part 4 . . . . . . . . . . . . . . . . .
New merge concept cartoon part 5 . . . . . . . . . . . . . . . . .
New merge algorithm class diagram . . . . . . . . . . . . . . . .
Mapping of SBML base elements to semanticSBML merge datastructure . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Screenhot - New merge algorithm GUI . . . . . . . . . . . . . . .
Overview of clustered BioModels database . . . . . . . . . . . . .
Cluster of glycolisis models . . . . . . . . . . . . . . . . . . . . .
Cluster of mitogen-activated protein kinase models . . . . . . . .
Simulation of the respiratory oscillation model . . . . . . . . . .
Simulation of the merged respiratory oscillation model cell 1 . . .
Simulation of the merged respiratory oscillation model cell 2 . . .
9
11
12
14
18
20
22
23
24
25
25
27
32
33
34
37
41
45
47
48
49
50
51
53
54
58
61
62
62
66
67
68