Hi smileface,
I finally switched to use altddio IP (I'm not sure altlvds_rx fits our needs). I'm still having some problems in getting the right interpretation of what I'm receiving, but at least the devices seem to communicate with each other.
I think that, at the frequency we're dealing with, I/O timing should be important. The following link explains well source-synchronous interfaces: there's also an application example with an ADC from TI in all similar to ours.
http://www.alterawiki.com/wiki/source_synchronous_analysis_with_timequest Regards,
Lorenzo