Open marcmaxson opened 4 years ago
RUVm paper ref: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4652745/
Meffil - another batch and slide effect reduction approach https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247925/
CONFINED (more for predicting cell composition) https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6624895/
https://bioconductor.org/packages/release/bioc/vignettes/missMethyl/inst/doc/missMethyl.html#introduction
I found a new-ish method, RUVm, for removing unwanted variance between batches using negative controls. This works well after NOOB. Should I plan to port this from R into methylprep? https://cran.r-project.org/web/packages/ruv/ruv.pdf