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Depending on the bandpass of the peaks in your filter spectrum if you shoot with an OSC you'd debayer to individual channels then stack them separately to extract the Oiii and the Ha. Ha is likely to be in the red pixels and Oiii in both green and blue pixels. Or if you're adventurous you could heavily dither your data then take advantage of the bayer drizzle process in PixInsight straight to color then do a drizzle integration. For the latter to work correctly you'll need to increase the number of individual subs even if you use the same total integration time. I haven't used the duo band filter I have yet with an OSC but will do in the near future so I'll let you know how that goes. To date I have only shot mono with it with some success.
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