Hello Vaibhav,
To compare the new and prior annotation (the genome is unchanged, making liftOver unnecessary), the best tool to use would be "Operate on Genomic Intervals" -> "Profile Annotations". Select the option for "Genes and Gene Prediction Tracks" as a starting place. The comparison data will be from UCSC's existing gene tracks from rn4.
Thanks for using Galaxy!
Best, Jen Galaxy team
On 12/29/10 1:41 PM, vaibhav jain wrote:
Hi all, I have data with RGSC 3.4 build, along with the start and end coordinates of genes. I want to use lift-over tool to get the corresponding coordinates of those genes for Rat Nov. 2004 (Baylor 3.4/rn4) Assembly. So how I can do this using lift-over ??? Or is there any other method to do this work ???
Thanks in advance
Vaibhav Jain Research Scholar @IGIB Delhi, INDIA