Hi there,
The public API method for checking/unchecking nodes is toggleCheckstate. The parameter is the element whose checkbox you would like toggled.
The entire API documentation is located here: http://help.infragistics.com/jQuery/2012.1/ui.igtree
Thank you for using the Infragistics forums!
No worries it's at the bottom of the page, so it's not that hard to miss ;)