Entering edit mode
11.6 years ago
camelbbs
▴
710
Dear All,
I want to ask if there is a good tool or website can figure out the conservation score (like phastcons) for a chromosome region, eg. chr1:1617197-1617281(human).
Phastcons give the score for each site but not for a region. I am not sure if that is correct to get the mean score of phastcons score at all sites in that region.
Can anyone help this.
Thanks very much.
Che
Note that phastCons and phyloP scores are not available at unmappable bases, so it may make sense to filter regions before applying them.
Thanks very much. But I think that will give scores for each nt, Can I average the scores for a range?
Table browser can not do that in my knowledge. However, you can download phastcons scores from UCSC and write a small script to calculate averages.