The college applied research is a relatively new phenomenon. It's based on a very successful model from Quebec that dates back to the 1980s, but the rest of Canada really only jumped on board in the early 2000s, so it's understandable that there would be an imbalance between university and college support.
What that looks like at present is that last year the federal government funded universities for R and D to the tune of $4.3 billion, and the support for colleges was $135 million. That's about 97% and 3%.
Also, there are 100 universities eligible for this support and 120 eligible colleges. It is imbalanced. I'm not sure why that is, but that's just what the numbers show.