Javascript and forms in PHP

Is there a limitation in PHP with Javascript and forms? I have a problem when creating a form within a table with Checkboxes and the accompanying javascript to govern the checks. I am generating the html for a table the first of 10 cells has 3 checkboxes. I have experimented whether to make the form begin at the table tag, and make multiple forms with different names at each table row. Generating the HTML is easy but getting the javascript to work has been unsuccessful... Any insights? /T