Do you mean you put the bottle in the bed with her? I was always told not to do that because it is bad for their teeth. And practically, if you let her drink before she can fall asleep at night every night, when it comes time to potty train her it will be very difficult to keep her from wetting the bed.
As far as switching from bottle to sippy cup though... Try the brand called "Nuby"...they are probably the cheapest kind in the store. All of my kids transitioned easily to this sippy cup when they wouldn't take any other brand. I think it is because the top feels the most like a bottle nipple.
What I did with mine was when it was time to give them a bottle, I held them and gave them the Nuby instead. I also gave it to them every time they were in their high chairs and let them have it unlimited (filled with water) when they were playing. Try experimenting with different brands and see if she will take another type. Like I said, Nuby has always worked best for my kids and I know other moms it worked well for also.