My bikes rubbing me the wrong way

[DJR]

Suggestion: can you perhaps borrow a wheel from someone and see if the issue persists, if not you know it's the wheel without having to tear it apart now. 

Smart idea! 

[Wannabe]

The OP is complaining about a vibration, which can be attributed to an unbalanced wheel which in turn can be caused by sealant which has solidified in one part of the wheel creating a heavy spot=>unbalanced wheel=>vibration. QED

 

That's what happens when you do not give context to your counter questions. 

[capediver]

my 2c...

Spoke tension! When wheel is not under load, freewheeling in stand, all looks good, but load the wheel and apply pedalling, if the spokes are not correctly tensioned, the hub can twist out of alignment......

 

For 3c...

I read somewhere, your tyres look OK...I got 2.8" on my HT, rear wheel had a slight wobble and thought it was the rim that was out, but on a bench wheel alignment tool, rim is 100%...it's the tyre casing that had a problem with slight stretch at one point of side wall to make it look like entire wheel was out...