Hello to the UCSC staff and all other readers,
I am working on cooperative genomics computer program that requires analyzing
conservation of introns genome-wide. As far as I understand the
phyloP28wayPlacMammal, phastcons17way (and similar tables) are designed for
such purposes. It would be realy nice if you can help in resolve some mysteries
about these tables:
1) I see that the table directs me to a file named *.wib. and I'm wondering if
it is nessasery to use this file, or that the table itself can be usefull
enough for geting accurate information the sections it reports about ?
2) Is there any simple way to rapidly get to the exact position of *.wib in
windows ?
3) what sumSquares, sumData, validCount mean?
4) I see that sometimes the phastcons17way table referes to gapped regions as
highly conserved, is there a way to avoid this false informations, and does
phyloP28wayPlacMammal suffer from the same problem ?
5) I understand that each raw represent about 1025 nucleotides but that
sometimes the number of rows is samller, why ? what does it mean ?
Many thanks,
Avi
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