#In this case, the donor/acceptor and PhyloP data are in the same file. I'm thinking column 3 can be used to distinguish them in downstreamformatting in the config.

#Formatting:

#Add black border around each feature.

#Color scheme: use a similar as for the alphafold tracks:

Acceptor, Donor, and trstart/stop:
Bad: score < 0.2 ORANGE
Potentially/likely bad: 0.2 < score < 0.5 YELLOW
Potentially/likely good: 0.6 < score < 0.8 LIGHT BLUE
Good: score > 0.8 BLUE

PhyloP:
Highly accelerated: phyloP < -3 (lack of conservation, potentially bad gene model) ORANGE

Accelerated: -3 < phyloP < -1 ORANGE
Neutral: -1 < phyloP < 1 YELLOW
Conserved: 1 < phyloP < 3 LIGHT BLUE
Highly conserved: phyloP > 3 (BLUE


For config file: color-code by scale. Flags for values:
PhyloP-score=
donor-score=
acceptor-score=
trslstart-score=
trslstop-score=

For config file:  if we can assign layer order in the config so that a collapsed track: donor/acceptor data is on top, then under that PhyloP, then under that the trs data. Tracks would be by default collapsed. 

Also: not sure if we can make the trs data slightly "thinner" rectangles, and the donor/acceptor rectangles slightly "taller" for ease of visualization.