Dear Genome Help, I was using liftOver to convert a large number of positions in Hg18 to Hg19 coordinates (Human). It runs great except one position was lifted to a different chromosome. I tried it on both the cmdline tool and the online one, the results are the same.
The trouble position (as input) is chr7:69506-69506 was lifted to chr16:90228418-90228418 I choose Human Hg18 to Human Hg19 and left the other selections as default values. The cmd I used was ./liftOver -positions oldfile hg18ToHg19.over.chain newfile unmapped I expect the result should be either on the same chromosome or unmapped. How do you explain this? Thanks, Pei ---------- Pei Lin Software Engineer III Broad Institute _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
