You have it hooked up to dyno as normal and with an exhaust probe to measure the A/F
Before you make adjustments, you start with a run and get your baseline condition.
Then you need to make changes at individual (or groups) of cells in the fuel map to fill holes or make it richer etc depending on how the baseline looks. Note that you also have a timing map as well as a fuel map, so have that felxibility also.
You cannot make changes on the fly - you must make changes to the map, then upload it to the bike and do another run.
Clearly you will need your laptop with Tuneboy program and your base map available; you need to be able to edit and then re-load as mentioned.
A map looks like this
Then you highlight individual cells or groups of cells and page up/down to increase or decrease the values to add or subtract fuel from the current level.
So the operator needs to be able to read what is needed from the dyno plot and A/F curve and make the necessary changes in the map.
Note that as opposed to making changes in the actual fuel map, you can use the trim map - this may be easier for the operator to follow as you are only adding the change value, rather than a new absolute value.
In other words it will apply the value of change to the base map.
This is somewhat analagous to using a PC3 in that respect.
Note that this starts out as all zero - new values can be plus or minus as required.
The trims make it a little easier to work with as you do iterative runs, to add or subtract fuel without changing the base level.
At the conclusion, when you are satisfied with the results, you can commit the trims to the main map, so that now has teh new absolute values (the trim map will be reset to zero)
There are similar maps for ignition
There is also an ignition trim map as well as the absolute value map.