To get started, click ‘Enter Tool’ on the Bio Model Analyzer website. You will enter Bio Model Analyzer’s blank canvas screen, with the icons aligned at the top of the screen and ‘Default Model: Version 1’ displayed in the lower right-hand corner.
Drag and drop works the same way for cells, membrane receptors, red variables and grey constants. Click the icon, drag it onto the canvas and release the mouse button to place the variable. Note that the canvas has ‘soft spots’ where the components can be placed and if you are not hovering over a soft spot, you won’t be able to place the component. These soft spots are apparent through highlighting. For instance, if you’re dragging a cell, a grid will highlight when you’ve reached a spot where you can release the cell onto the canvas. Similarly, when dragging receptors onto the cell membrane, you’ll see a circular spot appear highlighted in eight possible locations to attach the receptor around a given cell.
Drawing out the relationships that connect these components is done by firstly clicking on the activating / inhibiting relationship button and seeing it highlighted – this means the arrow is ready to be drawn between variables. Hover over a variable where the relationship starts to see it highlight, click, hold and drag it to another variable until that one is highlighted; release the mouse button and the relationship is drawn.
The zoom operates by using either your mouse wheel or the zoom bar in the top right-hand corner. There is also a panning hand icon; when this mode is on (clicked and highlighted), you can pan around the grid, which you cannot do when the selection tool is on.