Different colleges have different admission criteria for MSc. Computer Science. Most Indian universities require you to either pursue Computer Science as one of the subjects for at least two years of your undergraduate studies, or pursue an Hons. in Computer Science. 

So you might not have a chance to pursue an MSc. in Computer Science in India. But you can opt for an MSc. in Mathematics and Computing. This stream deals with Computer Science, but it is deeply rooted in Mathematics. You can sit for the IIT JAM exam as well.