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I use both a 400D and a 1000D for my astro imaging, controlled with BYE. Both have been DIY modded - the 400D has a full spectrum mod (i use an astronomik L clip in filter for imaging) while the 1000D has an Astrodon Inside luminance filter. Of the two, I find the 1000D is definitely easier to use as a) it doesn't require a Shoestring DSUSB cable for bulb exposures, and b) it has Live View which I find very helpful. The 1000D is also Digic III which means that it can be controlled by Sequence Generator Pro as well.
So of these two I would probably suggest a 1000D. Depends a bit on your telescope though, as if you're using a short focal length, a newer EOS with smaller pixels might be a better option.
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