Lift-over coordinates from one reference genome version to another
From BITS wiki
Locally and confidentially
You can lift over coordinates using the Jim Kent liftover tool. Download it from http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/.
- liftOver but keep header track line (from IGV track file)
sed -e "s/^track /#track /; s/^browser /#browser/" customTrackBedFile.txt \ | liftOver stdin map.chain stdout unMapped \ | sed -e "s/^#track/track/; s/^#browser/browser/" > liftedCustomTrackBedFile.txt
On the web
Two places are available for web-gui liftOver