Analysis of RNA Cytosine-5 Methylation
Synthetic sample 1 of RNA bisulfite sequencing
Synthetic sample 2 of RNA bisulfite sequencing
Synthetic sample 3 of RNA bisulfite sequencing
Analysis of RNA Cytosine-5 Methylation from bisulfite sequencing exper...
Cast bisulfite experiment data into a BisXP object
Function implementing Fisher's method to combine independent p-values
Take intersection of 2 tables
Read RNA bisulfite experiment data and cast it into a BisXP object
Find ratio (Poisson parameter / coverage) for one sample of bisulfite-...
Test RNA Cytosine methylation based on Poisson model distribution
Combine samples p-values and ratios
Apply poisson.test to BS coverage and non-conversion ratio.
Bisulfite-treated RNA non-conversion in a set of samples is analysed as follows : each sample's non-conversion distribution is identified to a Poisson distribution. P-values adjusted for multiple testing are calculated in each sample. Combined non-conversion P-values and standard errors are calculated on the intersection of the set of samples. For further details, see C Legrand, F Tuorto, M Hartmann, R Liebers, D Jakob, M Helm and F Lyko (2017) <doi:10.1101/gr.210666.116>.