Man pages for ShanEllis/methylarking
Analyzing RRBS Data

annotateGenesAnnotate genomic position using bumphunter's matchGenes
bootstrapBoxplot of single sites from output from DMS Analysis
bootstrap_arrayBoxplot of single sites from output from DMS Analysis
bootstrap_nooutBoxplot of single sites from output from DMS Analysis
boxplot_DMRBoxplot of regions from output from DMR Analysis
boxplot_DMSBoxplot of single sites from output from DMS Analysis
boxplot_VMRBoxplot of regions from output from VMR Analysis
CircosQQ plot of all sites from DMS Analysis
CpGPiePie Chart: CGI Annotation
GenePiePie Chart: GeneAnnotation
hyperGet Hypermethylated Sites
hypoGet Hypomethylated Sites
karyoKaryogram:
manhattanManhattan plot of all sites from DMS Analysis
mean.methMean Methylation Difference - by case-control
multiplotMultiplot function
obsQQ plot of all sites from DMS Analysis broken down by Mean...
QQplotQQ plot of all sites from DMS Analysis
runbumphunterRun bumphunter to obtain DMRs (parameters stolen straight...
runDVSDVS Analysis
runlimmaDMS Analysis
sitesperchrPlot number of sites by chromosome
volcanoVolcano plot of all sites from DMS Analysis
ShanEllis/methylarking documentation built on May 10, 2017, 1:33 p.m.