Hi, I plan to mine the splicing patterns contained in UCSC know genes (they are actually transcripts) so I look into the clustering of them done by UCSC. But I quickly get confused after checking some examples. For example, cluster 2 (including transcripts uc009vis.2, uc009viu.2, uc001aae.3, uc009vit.2, uc001aac.3, uc009viq.2, uc009vir.2, uc001aab.3, uc001aah.3) and cluster 3 (including transcripts uc009viw.2, uc009viv.2, uc009vix.2, uc009vjd.2, uc009viy.2, uc009viz.2, uc009vjc.1, uc001aai.1, uc010nxs.1, uc009vjb.1, uc009vje.2, uc009vjf.2) are on the same strand, overlap significantly and even share some exons. How can they be divided into two different clusters? Could somebody explain a bit more about the UCSC clustering procedure or point me to the documentation for that? Or any hints on mining splicing patterns based on UCSC genes will be appreciated! Thanks a lot!
-- Leo _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
