Dear Kayla, how can I annotate the first field in the .BED file of the SNPs in the XY pseudoautosomal regions, with the position on X and on Y separately?
Thanks, Alexander --------------------------------------------------------------------------------------------------------- Alexander Navarini Dr.med. Dr.sc.nat., Dermatologist & Venereologist FMH UEMS EBDV Division of Genetics and Molecular Medicine, King's College London St John's Institute of Dermatology, Guy's Hospital, Great Maze Pond SE1 9RT London, United Kingdom [email protected]<mailto:[email protected]> From: Navarini, Alexander Sent: 03 June 2012 16:25 To: '[email protected]' Subject: liftOver help Importance: High Dear Kayla, I get an error message with the liftOver tool that I cannot understand. ./liftOver all_03_qc.gen hg18ToHg19.over.chain.gz all_03_qc_hg19.gen unMapped Reading liftover chains Mapping coordinates invalid unsigned integer: "rs9755941" I can transform my .BED files on your website just fine, so I'm puzzled. Could you please give me advice there? Thanks, Alexander I downloaded the liftOver executable just now and gave it permissions. wget http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/liftOver wget http://hgdownload.cse.ucsc.edu/goldenPath/hg18/liftOver/hg18ToHg19.over.chain.gz --------------------------------------------------------------------------------------------------------- Alexander Navarini Dr.med. Dr.sc.nat., Dermatologist & Venereologist FMH UEMS EBDV Division of Genetics and Molecular Medicine, King's College London St John's Institute of Dermatology, Guy's Hospital, Great Maze Pond SE1 9RT London, United Kingdom [email protected]<mailto:[email protected]> _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
