Even though i am from manipal itself i will try to write an unbiased answer..

last year i was in the same position, cleared all 4 papers

now first of all just eliminate the SRM..its not worth going there if u are getting any one from the other three

now NMIMS is more inclined towards MBA part and its btech degree is not so well recognised and also it doesnt have any infrastructure ( just 2–3 buildings) thats all..so wouldnt suggest that too

now between manipal and VIT, they are pretty much same..it would cost you less in VIT but also you wont be living your college life there. There are just too many restrictions and its far off from main city..

so yeah i would suggest you to take cse manipal if u are getting..it really has some good faculty, nice infrastructure, no restrictions, and fun living environment