Hi Gurus, I am searching for a fish (at least zebrafish/medaka/stickleback) multiple alignment with zebrafish as the base. There is none on any zebrafish assembly but I can see the right chains on danRer6. I've also found an alignment of danRer5/oryLat2/gasAcu1/tetNig1/fr1 on oryLat2 as the base.
Now, I could use mafOrder on the maf files from oryLat2 and remove fugu and tetraodon with mafSubset to get what I need. An alternative would be to create the maf file based on the net files from danRer5 with axtToMaf. I have a feeling that the 2nd option will give better results but I am not sure. What do you think? thanks! cheers Max -- Maximilian Haussler Tel: +447542993736 +447574054746 http://www.ls.manchester.ac.uk/people/profile/index.asp?id=4774 _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
