Hi Vish, Our mailing list software strips attachments, so I haven't seen the format of your file. However, liftOver accepts several formats. If you are using the command-line version, run liftOver without arguments to see what they are. Format descriptions are here:
http://genome.ucsc.edu/FAQ/FAQformat.html If you are using the web-based version of liftOver, you can either use BED format (http://genome.ucsc.edu/FAQ/FAQformat.html#format1) or "position" format. Position format is the same as what appears in the position/search box when you are using the Genome Browser. Coordinates in position format look something like: chr1:1000-5000 The same position in BED format would be: chr1 999 5000 Note that the first coordinate is one base less than in position format (see http://genomewiki.ucsc.edu/index.php/Coordinate_Transforms for an explanation). BED format can also contain additional fields. I hope this answers your question. If you have further questions, please feel free to contact us again at [email protected]. -- Brooke Rhead UCSC Genome Bioinformatics Group On 03/05/11 13:20, ashwin Vishnuvardhana wrote: > Hi, > i have .cod files (find attached) from MM8 which need to be mapped to MM9. I > want to use liftOver program. So can you please tell me how to convert .cod > files to liftOver acceptable format. > > Thanks > Vish > > > ------------------------------------------------------------------------ > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
