Try gimp - it will let you shift the colour channels to re-align them. Or, once you have a recombined RGB image, you could try registax with the "estimate RGB" function on the wavelets page.
Or, photoshop.
Or, AstraImage as above - when you recombine the image you can adjust the X/Y offset of each channel.
For combining LRGB, the only programs I would use are GIMP and Photoshop but I know there are others (probably MaximDL and other deep-space image processing software)
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