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Keep in mind that in [Game Mode] (unless you use the helper command to unlock everything, see my Ecosystem Steam Guide) you will only see the options that you have unlocked thus far. In [Creative Mode] everything is unlocked from the start.
Steps:
1. F3 [Creature Creation Menu]
2. Select your species type
3. Use the [Evolutionary Parameters] menu on the left side of the screen before spawning
4. Inside this menu, you can turn on/off the different limits, caps, and many other settings. When you place that spawn, these settings will apply to every species created from that spawn.
These are both features that would be interesting to use. There is not filtering. However, you can see the plankton on the mini map as purple dots if you have the Leaf icon [Show/Hide Plants] enabled. You can disable the Mountain icon [Show/Hide Terrain] to help make them easier to see. They can still be hard to see depending on how complex your ecosystem is.
Now that Ecosystem v1.0 is now considered feature complete, I may pick back up on the development of EcoLink, a mod for the game that opens up new features. However, currently that is TBD. If I re-start the mod development, advanced charts and graphs with filtering are features that I am interested in. While I have not researched advanced plankton maps specifically, I have researched and am interested in advanced plankton features such as partial and full culling.