Dear Sir or Madam, I am trying to use the liftOver tool to convert from mm9 to Hg19. For illustration purposes, consider the .bed file below:
chr1 21606900 21606901 chr1 12107460 12107461 chr1 26838080 26838081 chr1 33258730 33258731 chr1 33258771 33258772 when running it locally with the default settings, it fails to map three of the entries: #Deleted in new chr1 26838080 26838081 #Duplicated in new chr1 33258730 33258731 #Duplicated in new chr1 33258771 33258772 However, when I run it on your website, it only fails with the first of the entries (which I believe is the correct behavior). I downloaded the chain file earlier is this week, so I don't believe that should be the issue. Do you have any idea what the problem is? Best Regards Martin Hemberg -- Martin Hemberg, PhD Post-doc, Kreiman Lab Department of Ophthalmology and Program in Neurobiology Children's Hospital Boston, Harvard Medical School _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
