  We study the phase transitions of three-dimensional $\mathcal{N}=2$ $U(N)$
Chern-Simons theory on $\mathbb{S}^3$ with a varied number of massive
fundamental hypermultiplets and with a Fayet-Iliopoulos parameter. We
characterize the various phase diagrams in the decompactification limit,
according to the number of different mass scales in the theory. For this, we
extend the known solution of the saddle-point equations to the setting where
the one cut solution is characterized by asymmetric intervals. We then study
the large $N$ limit of Wilson loops in antisymmetric representations, with the
additional scaling corresponding to the variation of the size of the
representation. We give explicit expressions, both with and without FI terms,
and study $1/R$ corrections for the different phases. These corrections break
the perimeter law behavior, as they introduce a scaling with the size of the
representation. We show how the phase transitions of the Wilson loops can
either be of first or second order and determine the underlying mechanism in
terms of the eventual asymmetry of the support of the solution of the
saddle-point equation, at the critical points.
