It appears not. Nor does it account for the severity of the crime among the included indexes.
ADDED:
I misread. Does seem to be a rate.
Not totally clear to me how per capita adds. On the one hand it captures the family member or neighbor known person assault. On the other hand, it's not terribly comforting to know that there are lots of murders somewhere but there are lots of people so you'll probably be OK.
It sounded like it was weighted by population (i.e. it compares the crime rate, not the total number of crimes), but it doesn't weight by the severity of the crime.
Colma has an index equal to or worse than most of Oakland, which only makes sense if there's some form of population-weighting, since Colma has only 1500 or so living inhabitants (and doesn't have a particularly bad reputation for crime, except for most "residents" being already dead when they get to Colma).