I use mine purely in the digital domain (toslink in from a Musical Fidelity V-Link, spdif out via XLR).
The way I apply room correction is:
1. Make a pink noise digital recording using a measurement microphone on different positions in the room, left and right channel separately.
2. Import these recordings in Audacity and generate a frequency distribution csv (comma separated values) file per recording.
3. Import the csv files in a specially made Excel file, one Excel file per channel.
4. With this Excel file I can mimic the effect of the graphic and parametric eq settings on the frequency curves, so I use it to determine the right eq settings.
5. Adjust the DEQ2496 with these settings.
Repeat the above procedure until the results are satisfactory.
This gives much better results that the auto eq function of the DEQ2496, since you are much more in control of the frequency curve you desire. My curve resembles the so-called 'X-curve' and I am very happy with the results.
I am happy to provide the Excel file for free on this forum. It does not contain any macro's, everything is done with in-cell formulas.
The icing on the cake for me is the addition of expansion (for more dynamics) and the dynamic equalizers. With one dynamic eq I amplify the highs below a certain threshold to get higher clarity without aggressiveness. Somehow I have the feeling that either my tweeters or my ears are less sensitive to higher frequencies at lower levels and the dynamic eq perfectly compensates for that. Same trick for the low frequencies, which adds warmth to the sound without making it sound too muddy. The third dynamic eq I use to very slightly tune down the mid frequencies at high levels (just 1 dB). To me this makes voices sound more natural and less intrusive. I would not like to give up the dynamic eqs and I do not know of any other device that offers them.
To me the DEQ2496 is the most valued device in my audio chain, apart from my speakers.