Dear Sir/Madam, I have a long list of Genomic Loci. I would like to calculate the PhastCon scores over these region. I would like to calculate the basewise scores by accessing the PhastCon Bin scores using the mySQL direct access but I have a problem with data retrieval.
Lets us assume the locus is located at : chr12:56439310-56439395 I assume I need to query the "phyloP44wayPlacMammal" using the following query: select * from phyloP44wayPlacMammal where chrom="chr12" and chromStart>=56439310 and chromEnd <=56439395; But most of the time I get empty entries back. So then I can not go basewise and calculate the phastCon over the bin(s). Could you please let me know if I am making mistake somewhere? Cheers, Mohsen Khorshid _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
