What are you separating them from? What have you tried already? It seems one should be able to purify them on silica gel or C18

Please refer to these following papers. I am not sure if these could help, but I agree with Dr. Jack Silver. You can give us a more detailed inquiry, stating what you've already done and literature you've already consulted. Regards!

Extraction and separation of anthraquinone glycosides:

http://onlinelibrary.wiley.com/doi/10.1002/jps.2600620606/abstract

Separation of 9,10-anthraquinone derivatives: evaluation of functionalised stationary phases in reversed phase mode:

http://www.ncbi.nlm.nih.gov/pubmed/21529815

Separation of 9,10-anthraquinone derivatives: evaluation of C18 stationary phases:

http://www.ncbi.nlm.nih.gov/pubmed/21227440

Anthraquinones shouls be put on silica jel