WebJan 30, 2024 · getMethylDiff-methods: get differentially methylated regions/bases based on cutoffs; getSampleID-methods: Get or Set Sample-IDs of the methylKit objects; getTreatment-methods: Get or Set treatment vector of methylKit object; joinSegmentNeighbours: Join directly neighbouring segments produced by methSeg getMethylDiff: get differentially methylated regions/bases based on cutoffs Description The function subsets a methylDiff or methylDiffDB object in order to get differentially methylated bases/regions satisfying thresholds. Usage getMethylDiff (.Object, difference = 25, qvalue = 0.01, type = "all", chunk.size = 1e+06, save.db = FALSE, ...)
extract-methods: extract parts of... in methylKit: DNA methylation ...
WebSep 23, 2024 · myDiff25p=getMethylDiff(myDiff,difference=25,qvalue=0.01) gene.obj=readTranscriptFeatures("C:/R-Data/Bismark_using/hgTables.bed.txt") annotateWithGeneParts(as(myDiff25p,"GRanges"),gene.obj) # please also include the results of running the following in an R session > … WebJan 30, 2024 · Description This function filters methylRaw, methylRawDB, methylRawList and methylRawListDB objects. You can filter based on lower read cutoff or high read cutoff. Higher read cutoff is usefull to eliminate PCR effects Lower read cutoff is usefull for doing better statistical tests. Usage funeral directors bishops stortford
blog/2024-03-08-methyLkit入门使用.md at master · shey-kail/blog
WebgetMethylDiff-methods: get differentially methylated regions/bases based on cutoffs getSampleID-methods: Get or Set Sample-IDs of the methylKit objects getTreatment-methods: Get or Set treatment vector of methylKit object joinSegmentNeighbours: Join directly neighbouring segments produced by methSeg WebApr 7, 2024 · Initially, I set up my code to include 25%, 50%, 75%, and 99% differences in methylation between treatments. After loading in my saved .RData, I ran getMethylDiff … WebMar 8, 2024 · A tag already exists with the provided branch name. Many Git commands accept both tag and branch names, so creating this branch may cause unexpected behavior. girls clothing sizing chart