1 Introduction
2 Biopathway Modeling Mode
3 Workspace - Main Window of CI
3.1 Menu Bar Commands
3.1.1 File | New
3.1.2 File | Open
3.1.3 File | Open Recent Files
3.1.4 File | Close File
3.1.5 File | Close All Files
3.1.6 File | Save
3.1.7 File | Save as
3.1.8 File | Insert
3.1.9 File | Import | BioPACS
3.1.10 File | Import | SBML
3.1.11 File | Import | CellML
3.1.12 File | Export
3.1.13 File | Export | Simulation Log
3.1.14 File | Look&Feel
3.1.15 File | Print Area
3.1.16 File | Print
3.1.17 File | Exit
3.1.18 Edit | Undo
3.1.19 Edit | Redo
3.1.20 Edit | Cut
3.1.21 Edit | Copy
3.1.22 Edit | Paste
3.1.23 Edit | Delete
3.1.24 Edit | Duplicate
3.1.25 Edit | Extract
3.1.26 Edit | Find
3.1.27 Edit | Select All
3.1.28 Edit | Select None
3.1.29 Edit | Select Inverse
3.1.30 Edit | Align Selected Elements to Grid
3.1.31 Edit | Align all elements to Grid
3.1.32 Edit | Align to
3.1.33 Edit | Insert Entity
3.1.34 Edit | Insert Process
3.1.35 Edit | Insert Image
3.1.36 Edit | Insert Text
3.1.37 Edit | Insert Frame
3.1.38 Element | Entity Type
3.1.39 Element | Connector Type
3.1.40 Element | Reverse Direction
3.1.41 Element | Transform
3.1.42 Element | Arrange
3.1.43 Element | Group
3.1.44 Element | Ungroup
3.1.45 Element | Fill Color
3.1.46 Element | Line Color
3.1.47 Element | Line Style
3.1.48 Element | Show Support Path
3.1.49 Element | Stroke
3.1.50 Element | Replace Figure
3.1.51 Element | Replace Arrow Start
3.1.52 Element | Replace Arrow End
3.1.53 Element | Remove Anchor
3.1.54 Element | Remove All Anchors
3.1.55 Element | Edit Image
3.1.56 Element | Reload Image
3.1.57 Element | References
3.1.58 Element | References | Add/Edit URL
3.1.59 Element | URL Templates
3.1.60 Element | Text
3.1.61 Element | Font
3.1.62 Element | Show Element
3.1.63 Element | Show Name
3.1.64 Element | Show Variable
3.1.65 Element | Show Value
3.1.66 Element | Show Firing Style
3.1.67 Element | Create Chart
3.1.68 Simulation | Play
3.1.69 Simulation | Step Play
3.1.70 Simulation | Pause
3.1.71 Simulation | Stop and Initialize
3.1.72 Simulation | Fast Play
3.1.73 Simulation | Max Speed Play
3.1.74 Simulation | Play with Animation
3.1.75 Simulation | Step Play with Animation
3.1.76 Simulation | Send to Server
3.1.77 Simulation | Show Submitted Simulations
3.1.78 Simulation | Setup Servers
3.1.79 View | Gene Net Mode
3.1.80 View | Show User Units
3.1.81 View | Zoom In
3.1.82 View | Zoom Out
3.1.83 View | Fit in Canvas
3.1.84 View | Actual Size
3.1.85 View | View inside
3.1.86 View | Show All Charts
3.1.87 View | Hide All Charts
3.1.88 View | Show Grid
3.1.89 View | Antialiasing
3.1.90 View | Grid Size
3.1.91 View | Background Color
3.1.92 Analyze | Add to Subnet
3.1.93 Analyze | Remove from Subnet
3.1.94 Analyze | Clear Subnet
3.1.95 Analyze | Extract Subnet
3.1.96 Analyze | Pathway Search
3.1.97 Analyze | Merge
3.1.98 Analyze | Gene Mining
3.1.99 Dialog | Show All Dialogs
3.1.100 Dialog | Hide All Dialogs
3.1.101 Dialog | Element Lists
3.1.102 Dialog | Element Settings
3.1.103 Dialog | Navigator
3.1.104 Dialog | Simulation Settings
3.1.105 Dialog | Chart Settings
3.1.106 Dialog | Preferences
3.1.107 Dialog | View Settings
3.1.108 Dialog | Finder
3.1.109 Dialog | Biological Elements
3.1.110 Dialog | Simulation History
3.1.111 Dialog | Graph Layout
3.1.112 Dialog | Edit Units
3.1.113 Window | Cascade Canvases
3.1.114 Window | Tile Canvases
3.1.115 Window | Minimize All Canvases
3.1.116 Window | Maximize All Canvases
3.1.117 Window | Duplicate Canvases
3.1.118 Help | Cell Illustrator Help
3.1.119 Help | User Guide
3.1.120 Help | Cell Illustrator Online
3.1.121 Help | CSML Online
3.1.122 Help | Cell Illustrator User Forum
3.1.123 Help | GNI Website
3.1.124 Help | About Cell Illustrator
3.2 CI Toolbars
4 Drawing Canvas
5 Element Lists
6 Element Settings
7 Navigator
8 Simulation Settings
9 Chart Settings
10 Chart Window
11 Preferences
12 View Settings
13 Finder
14 Biological Elements
15 Simulation History
16 Graph Layout
17 Edit Units
18 Submitted Simulations
19 Setup Servers
20 Print Model
21 Print Area Setup
22 Print Area Selection
23 External References
24 Add/Edit References
25 Edit Parts Dialogs
26 KEGG-BioPACS
27 Save Dialog
28 Script Editor
29 Pathway Search
30 Pathway Search Results
31 Gene Mining
32 About Cell Illustrator
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