I use vcftools to calculate FST between different populations, based on resequencing data. But the values of FST are between 0.5 and 0.9.
My research object is an endangered plant. I want to know why the FST value is so high, and whether it is normal or abnormal.
Hi Lu,
FST depends on the set of SNPs used and the sample size so check whether these parameters are similar in size to FST analyses in similar papers. See Weir and Cockerham (1984) for the statistical analysis of the FST statistic. https://www.jstor.org/stable/2408641
With FST values this high the populations may be different species as the FST values are high. Have you tried comparing sequences between populations to test their similarity, for example in BLAST?
https://blast.ncbi.nlm.nih.gov/Blast.cgi
Regards,
Rachel
- Badges
- Science method
- Similar topics
- Biological Science
- Genetics
- Gene Expression
- Protein Expression