Hi,
I would like to compare neutral genetic FST values generated from reduced-representation bisulfites sequencing (RRBS) read data with a distance value generated from methylation data. The aim here is to compare levels of neutral genomic differentiation to those of methylation differentiation in a specific tissue among closely related but ecologically divergent populations.
I know of several programs that will generate SNPs from bisulfite-converted read data, I am planning to use CGmapTools (Guo et al. 2017). I will then use this SNP data to generate FST values among the populations in question.
I was therefore wondering if anyone had advice about how to generate a comparable FST-equivalent measurement from identified differentially methylated cytosines (DMCs)?
Many thanks,
Alan
0 answers
No answers yet.
Log in to answer this question.
-
Blog: WGBS vs RRBS
written by Novogene •
-
Comparison of Bisulfite sequencing results with Methylkit and edgeR
written by iraia.munoa
-
Pairwise Fst values derived from different algorithms?
written by giulia.trauzzi •
-
What background to use for functional annotation analysis of RRBS DMR data?
written by alan.g.hudson •
-
Methylation Data Interpretation and Dychotomization
written by luisa •
-
Fst computation utilizing epigenetic modifications like histon modifications or methylation
written by baxy
-
What is the meaning of P(simulated fst < sample fst) from the lositan output?
written by ralbreiki7 •
-
Quantifying DNA methylation from Bisulfite-Seq Data
written by Ali
-
How to compare MBD-seq methylation data with WG bisulfite data or RRBS data
written by Saad Murtaza Khan
-
Is There An Alternantive To The Fixation Index To Select Snps Which Are Under Pos. Selection Pressu…
written by munch •
