After you file

If the original return is still being processed, you can look it up here. 

https://www.tax.ny.gov/pit/file/refund.htm

 

Use the expected amount of refund as filed on the original return.

 

They likely cased the check with your amended return before they actually processed it, and processing amended returns takes several extra weeks.

 

If you don't see an answer on the web site, you can try calling.  The last time I called the NYS tax department, I found they were helpful and easy to get ahold of, unlike the IRS.