If the college courses are more advanced than the level that AP courses attempt to emulate, and are otherwise generally acceptable for transfer credit, then they should be looked on favorably, assuming that you do well in them.
Even those college courses which are emulated by AP courses may be more rigorous, since many AP courses take a year in high school to cover what a college course covers in a semester. However, recognition of subject credit by distant universities may be more difficult with college courses than for AP scores. For example, college courses taken at a California community college are known to UCs and CSUs (see http://www.assist.org for transferability and equivalencies), possibly known to California privates like Stanford and USC, but less likely to be known to out-of-state schools.
If you later intend to apply to medical or law school, college courses taken while in high school and their grades are included in GPA calculations for those purposes (even though universities usually do not include grades from transfer credit in your GPA for the universities’ purposes).