Hello, Could anyone please help me with some problems I had regarding to the phyloP scores?
I found there are some inconsistency between phyloP scores I download from UCSC genome browser ftp site and the scores I got using Table Browser. For example, the vertebrate phyloP score of position chr1:73942 (hg18) is -1.709 from ftp site and is -1.71281 from Table Browser. Is something wrong here? Moreover, I don't understand what it means when the primate phyloP score is identical to the vertebrate phyloP score but is different from the placental mammal phyloP score at the same position. For example, at position chr1:73942, the primate, placental mammal and vertebrate phyloP scores are -1.709, -1.701, -1.709 respectively. These scores were obtained from genome browser ftp site. When primate score and vertebrate score are identical at the same position, I expect this means only alignments of primate species are available at this position. If so, how could the placental mammal score is different? I would really appreciate if anyone could help me out. Sincerely, Qianqian _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
