# Generated by roxygen2: do not edit by hand
 

 export(combine_methrix)

 export(convert_HDF5_methrix)
 export(convert_methrix)

 export(coverage_filter)

 export(extract_CPGs)

 export(get_matrix)

 export(get_region_summary)

 export(get_stats)

 export(load_HDF5_methrix)

 export(mask_methrix)

 export(methrix2bsseq)

 export(methrix_pca)

 export(methrix_report)

 export(order_by_sd)

 export(plot_coverage)
 export(plot_density)

 export(plot_pca)

 export(plot_stats)

 export(plot_violin)

 export(read_bedgraphs)

 export(region_filter)

 export(remove_snps)

 export(remove_uncovered)

 export(save_HDF5_methrix)

 export(subset_methrix)

 export(write_bedgraphs)

 export(write_bigwigs)

 exportClasses(methrix)

 import(DelayedArray)

 import(DelayedMatrixStats)

 import(HDF5Array)

 import(SummarizedExperiment)

 import(data.table, except = c(shift, first, second))

 import(ggplot2)

 import(parallel)

 importClassesFrom(SummarizedExperiment,SummarizedExperiment)

 importFrom(BSgenome,getBSgenome)
 importFrom(BSgenome,installed.genomes)

 importFrom(BSgenome,score)

 importFrom(BSgenome,seqnames)

 importFrom(graphics,axis)
 importFrom(graphics,legend)
 importFrom(graphics,lines)
 importFrom(graphics,mtext)
 importFrom(graphics,par)
 importFrom(graphics,plot)
 importFrom(graphics,title)

 importFrom(methods,as)
 importFrom(methods,is)
 importFrom(methods,new)

 importFrom(rtracklayer,export)

 importFrom(stats,complete.cases)
 importFrom(stats,cov)
 importFrom(stats,density)
 importFrom(stats,median)
 importFrom(stats,prcomp)
 importFrom(stats,quantile)
 importFrom(stats,sd)
 importFrom(utils,browseURL)

 importFrom(S4Vectors,metadata)
 importFrom("graphics", "barplot", "points")