According, to Careers 360 Manipal Institute has AAAA+ rating which means outstanding and BITS Goa has AAA+ rating which means Good.

If we compare the branches then CSE has good scope in the future in terms of job and placement.

You should opt for Manipal CSE Branch as it has overall good ratings and placements.

You can also check the ratings of the college from the given below link

Manipal Ratings and Reviews

BITS Goa Ratings and Reviews

Good Luck!!