Good Afternoon Jiannan: Thank you for this example. This triggers a problem in the liftOver program. The correction to the source tree will filter out to our public GIT source server in a few hours.
--Hiram jiannan lin wrote: > Dear UCSC Administrator: > I occur to one problem when using Liftover. I try to Liftover human > hg19 to rhesus RheMac2 with the strand info. > The human test data: > chr17 20786657 20786661 humantest 100 + > After Liftovering to RheMac2 (-multiple), the result is: > chr16 19897426 19897428 humantest 1 - > chr16 19897421 19897423 humantest 2 + > > But I split the human data (chr17 20786657 20786661) into: > chr17 20786657 20786659 humantest11 100 + > chr17 20786659 20786661 humantest22 100 + > The Liftovering result is > chr16 19897426 19897428 humantest11 1 - > chr16 19897421 19897423 humantest22 1 - > what is the reason for the strand difference of the two Liftover running? > The second Liftover running is consistent with the hg19-RheMac2 net > alignment . > Thanks very much! > Best Wishes! > Jiannan _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
