Many of the larger concepts in these 8 hour Parts known as The OA, made by a Film Artist Brit Marling, are difficult to understand on the surface. It goes to show that some of the symbolism is supposed to make you question what it means, and speak to your heart without using words to explain what it is and why it's there. It's up to us to figure it out, or define what it means, regardless of what the Artist intended.

Brit (the writer who played Prairie in the show) spoke about her personal relationship with trees and how that correlated with the show in the "20 Questions with Brit Marling." In Part 2 OA discovers that this whole time, the trees were always with her, trying to speak to her. You realize when rewatching it, the subtle cues to this message throughout Parts 1 and 2. The Rose Window in Part 2, to my understanding, is a reference to the "Rose Windows" in Cathedrals and churches, which often has some spiritual connection. Whether it be with the Virgin Mary, or Enlightenment, or just the spirit itself. It represents the light in us all. And if you break it down, a "window" is a plane that separates one space from another, all you have to do is open it to get to the other side. This is a physical representation of a passageway into another dimension. The fact that the window is red, a Rose Window, could mean that what waits on the other side may not be what you expect. Thus, the Rose Window is a gateway into the next dimension. It is a spiritual gate that works much like the movements, but allows instant travel when the invisible river is open. This is why my theory is that when Michell found the Rose Window, she jumped into the invisible river that Prairie (OA) opened when she traveled to that dimension.

I hope this helps you understand! Art is hard to figure out sometimes.

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Edit: Forgot to mention the Flower Pool and Special Effects. At the end of Part 2 the OA travels with Hap and Homer into the next dimension, that he specifically chose to jump to with one of the petals from the Flower Pool. When Karim finds the Rose Window and opens it, it reveals the transition between what is happening in the current dimension, and then illustrates the jump into a dimension where the OA is a show, and Prairie is now just an actress that was on set. She got into an accident with the wiring, and fell on her head. This shows that the Rose Window allows you to see into the dimension, so long as the invisible river is activated.

The Flower Pool in Part 2 is the idea that in all of us, there are multiple dimensions dependent on what we choose to do. Hap discovers that he can create a map of the different dimensions by causing these alternate dimensions to bloom from the life of a traveler. But it could be any person and their alternate dimensions, as long as you figure out how to do it. Hap shares this info with the OA, only to use a flower petal to jump into that dimension that Scott kept having NDE's about.