Hi Carsten, Please see these previously answered questions:
https://lists.soe.ucsc.edu/pipermail/genome/2011-September/027181.html https://lists.soe.ucsc.edu/pipermail/genome/2011-May/025936.html Please contact us again at [email protected] if you additional questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 10/13/2011 8:08 AM, Carsten Raabe wrote: > dear all, > > I am writing because I do have two questions concerning the phastCons > track at UCSC. > > As stated below (>>> copied from your page) phastcons scores measure > probabilities of negative selection and range between 0 and > > 1. where would I get these scores I tried via the table browser to > download BED, however the file doesn't contain the scores. > 2. is the higher probability of negative selection represented by > increasing scores or vice versa. > > > Another important difference is that phyloP can measure acceleration > (faster evolution than expected under neutral drift) as well as > conservation (slower than expected evolution). In the phyloP plots, > sites predicted to be conserved are assigned positive scores (and shown > in blue), while sites predicted to be fast-evolving are assigned > negative scores (and shown in red). The absolute values of the scores > represent -log p-values under a null hypothesis of neutral evolution. > The phastCons scores, by contrast, represent probabilities of negative > selection and range between 0 and 1. > > > Cheers, > > Carsten and as usual thanks a lot in advance > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
