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• How to compare MBD-seq methylation data with WG bisulfite data or RRBS data
  Hi I am trying to study different sets of publicly available data and private data in methylation...
• WGBS/RRBS "incomplete" methylation
  I noticed that sometimes WGBS/RRBS experiments have what I call "incomplete" methylation (there i...
• WGBS library preparation
  Can anyone tell me what's the direction library & undirection library in WGBS/RRBS? And, how ...
• How to compare methylation array data with methylation MeDip-seq data?
  Hello, I wanted to compare the methylation data generated in a study by both 450k array and MeDi...
• Convert MEDIP-seq RMS values into AMS using MEDIP
  Does anyone know how to convert MEDIP-seq RMS(raw methylation score) values into AMS? I looked in...
• how to combine methylation information from different platform?
  Hi, guys, I have a set of methylation data from 450K platform. And I want to test see how it com...
• Whole Genome BiSulfite Sequencing and RRBS have 2bp coordiantes in output, how both claim to give single base pair resolution?
  I have WGBS and RRBS data, where each coordinate in file represents 2 basepairs in RRBS eachentr...
• Comparison of MeDIP data with transcriptomics expression data
  Hello All, I wanted to compare the methylation data with expression data. Can I compare the meth...
• minifi for RRBS
  Hi, I would like to know if there is a package for batch effect correction for RRBS data (or WGB...
• Do I have to use beta-values/m-values for RRBS/WGBS data ?
  I am working on RRBS data. Someone suggested me to use M-values for the calculation of differenti...
• How can I calculate bisulfite conversion rate from RRBS data?
  I have RRBS data and I am asked to calculate bisulfite conversion ratio. I have aligned the data ...
• Is it possible to call variants (SNPs) with bisulfite data?
  Is it possible to call variants with WGBS or RRBS data? Since there are many C/T conversions, tho...
• MEDIPS bioconductor package "uniq" option
  Hi I am analysing a MBD-seq data in which I have to compare the data across species. I was going...
• How to quantify the DNA methylation level of a gene from WGBS data?
  I have got the WGBS data and the methylation the ratio of the all sites. But I want to know the e...
• Generating FST values from RRBS data
  Hi, I would like to compare neutral genetic FST values generated from reduced-representation bis...
• How To Modify The Charm R Program For Medip-Chip Dna Methylation Arrays?
  I am using NimbleGen 3x720K CpG Island plus RefSeq promoter DNA methylation arrays which uses a c...
• What background to use for functional annotation analysis of RRBS DMR data?
  Hi, I am attempting to carry out GO term enrichment analysis on set of differentially methylated...
• RRBS and Ilumina read size
  I'm new at RRBS and have just received some 100bp data sequenced on Illumina HiSeq. The problem ...