This week I have had my first experience working with ABI SOLiD data and all of the wonderful subtleties of colorspace data, double encoded Fasta, etc. I know there are tools that support processing data in these formats, which makes me wonder...why? Why would you want to work with colorspace or double-encoded data if you could just convert to the traditional base space? Is this conversion lossy? Is there some benefit of encoding dinucleotides as opposed to single nucleotides?