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Doesn't ring a bell, but you could try the "Fusion Dance" page/some of the related pages. Sorry I couldn't be more help! Good luck.
I tried already with that page, but no luck :/. I saw it on a channel in the Philippines called hero TV.
https://en.wikipedia.org/wiki/List_of_anime_broadcast_by_Hero
Could it be on this list?
This sounds like 2003's Barom One (which doesn't have its own page here).
Edited by Jhiday
Just found episode 1 for it and this is exactly what it was, thank you!
I remember this anime where there were these two guys, one smart and one strong, who were not at all friends. Then at night something from their computers started to glow, with a female voice talking to them, making them heroes. The smart one was blue and the strong one was red. They fused and became a superhero, then stopped a villain. I only manage to remember watching it on dubbed channel with lots of other animes as well.
Edited by Animaltamer