If I'm parametersing a unit circle about the origin for a line integral in a clockwise direction should it be $(x,y)=(\sin(t),\cos(t))$ or $(x,y)=(\cos(t),-\sin(t))$?
Does it depend on whether I start on the $x$ axis or the $y$ axis? Does it also matter if t is between $0$ and $2\pi$ or just a section of the circle?
I'm just trying to find a general case for all these things.
So, to answer the clockwise/anticlockwise thing, find the velocity of your parametrisation! (differentiate with respect to $t$). With a little abuse of notation,
$$\frac{d(\sin t, \cos t)}{dt} = (\cos t, -\sin t)$$
So, see that when $t = 0$ in particular, your position is $(0, 1)$ and your velocity is $(1, 0)$. So, this is starting at the top of the circle, moving clockwise (since its velocity is pushing it "forward" from the top)
You can repeat this for different parametrisations.
In general, you can consider the parametrisation to be
$$ s(t) = (\cos (t + \phi), \pm \sin (t + \phi)) $$ where $\phi$ is some global "phase factor" that you can use to rotate the particle around.
Your choice of $+\sin t$ or $-\sin t$ will determine the velocity (that is, the direction of rotation)
For a detailed analysis, I'd recommend getting used to the general form of the sine wave