3 answers
Have a look at this ever growing list
According to its description BFAST could do it. Haven't used it myself but read some promising comments. From the wiki page:
Can handle insertions, deletions, SNPs, and color errors (can map ABI SOLiD color space reads). Performs a full Smith Waterman alignment.
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written
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Michael Dondrup
SHRiMP, (see below) was probably the first aligner designed for colorspace
In addition to BFAST, which has excellent support for colorspace reads and produces gapped alignments, the AB SOLiD Bioscope software supports gapped alignments via the small indel tool.
Direct conversion of color space reads into dna-space will result in very high error rates and is not recommended.
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written
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Jonathan Manning
SHRiMP was designed primarily for colorspace data. Once it finds likely locations it will do a full alignment.
The main publication describes the method in detail.
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written
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Istvan Albert
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sorry, what exactly do you want to do? Do you mean RGB / HSL color space? Can you show an example?
I think ABI Solid sequencing data in "color space" is meant here.