Hi Alexander, One of our engineers commented: " When a table has block structure (e.g., exons in genePred or bed, gapless aligned blocks in psl), the Table Browser intersects only the blocks instead of the entire span... and all blocks, not just the CDS portion. Unless the primary table is a wiggle... that does the entire span of the secondary table items regardless of block structure! Of course it would be nicer to offer the option of whole span or blocks (or CDS when known), but I don't know of any plans to add that functionality."
Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 10/31/11 5:21 AM, Alexander Belostotsky wrote: > Hello, dear members of glorious UCSC Genome Browser team :) , > > I think it would be nice to report that *results of intersection between > some table and "knowngene" table in Table Browser give results of > intersection between this table and CDS coordinates in "knowngene" table.* > At least this occurs in hg18 assembly. > I suppose that people who use this want to have intersection between some > table and TX coordinates. So, it should be intersection between some let > say (pos_left between txStart and txEnd) and (pos_right between txStart and > txEnd). > > Am I right. If you think yes, please settle the problem. > > Best wishes, > Alexander > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
