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Filter methylation counts by coverage in a GRanges object
WebNov 1, 2024 · 1 Ranges revisited. In Bioconductor there are two classes, IRanges and GRanges, that are standard data structures for representing genomics data.Throughout this document I refer to either of these classes as Ranges if an operation can be performed on either class, otherwise I explicitly mention if a function is appropriate for an IRanges or … http://web.mit.edu/~r/current/arch/i386_linux26/lib/R/library/GenomicRanges/html/GRanges-class.html small gold locket
A quick introduction to GRanges and GRangesList objects - Bioconductor
WebApr 3, 2024 · Details. This function takes a GRanges object to define genomic regions, for which coverage data is loaded for each bwUrls input file.. Note that this function uses rtracklayer::import.bw() which they describe does not work on the Windows platform.. Update in version 0.0.68.900: This function was updated in two subtle ways, to work … WebGRanges object. min.coverage. Cytosine sites with coverage less than min.coverage are discarded. Default: 0. max.coverage. Cytosine sites with coverage greater than max.coverage are discarded. Default: Inf. percentile. Threshold to remove the outliers from each file and all files stacked. If percentile is 1, all the outliers stay. col.names WebThis function takes a GRanges object to define genomic regions, for which coverage data is loaded for each bwUrls input file. Note that this function uses rtracklayer::import.bw () … small gold mines for sale in victoria