Package: DMRScan 1.27.0

Christian M Page

DMRScan: Detection of Differentially Methylated Regions

This package detects significant differentially methylated regions (for both qualitative and quantitative traits), using a scan statistic with underlying Poisson heuristics. The scan statistic will depend on a sequence of window sizes (# of CpGs within each window) and on a threshold for each window size. This threshold can be calculated by three different means: i) analytically using Siegmund et.al (2012) solution (preferred), ii) an important sampling as suggested by Zhang (2008), and a iii) full MCMC modeling of the data, choosing between a number of different options for modeling the dependency between each CpG.

Authors:Christian M Page [aut, cre], Linda Vos [aut], Trine B Rounge [ctb, dtc], Hanne F Harbo [ths], Bettina K Andreassen [aut]

DMRScan_1.27.0.tar.gz
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DMRScan.pdf |DMRScan.html✨
DMRScan/json (API)
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Bug tracker:https://github.com/christpa/dmrscan/issues

On BioConductor:DMRScan-1.27.0(bioc 3.20)DMRScan-1.26.0(bioc 3.19)

bioconductor-package

4 exports 1.00 score 23 dependencies

Last updated 2 months agofrom:c387d957d9

Exports:dmrscanestimateWindowThresholdmakeCpGgenesmakeCpGregions

Dependencies:askpassBiocGenericscurlGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitelatticeMASSMatrixmimemvtnormopensslR6RcppRcppRollS4VectorssysUCSC.utilsXVectorzlibbioc