I am wondering a term with SIFT score.
I think that SIFT refers to some measurement of SNPs, and while reading Annovar paper, I saw below sentence as follows :
Finally, Annovar can filter specific variants such as SNPs with >1% frequency in the 1000 Genomes Projects, or non-synonymous SNPs with SIFT scores > 0.05.
Regarding above sentence, I ask you two questions.
1) I think that 1% frequency is a little bit low allele frequency. Dose it have an effect to filtering irrelevant snp variants? I don't think so..
2) SIFT-score threshold is about 0.05 as shown in above sentence. What does SIFT means about and threshold of 0.05 might be effect on filtering variants?