allClassMeansToGR: Convert allClassMeans table to GenomicRanges
In jsemple19/EMclassifieR: Classify DSMF data using the Expectation Maximisation algorithm
allClassMeansToGR R Documentation
Convert allClassMeans table to GenomicRanges
Description
Convert allClassMeans table to GenomicRanges with absolute genomic
coordinates and with methylation score at each position for each class and
multiple replicates in the metadata columns (required for plotting with
Gviz)
Usage
allClassMeansToGR(allClassMeans, regionGR, anchorPoint = "middle", dSMFwin = 1)
Arguments
allClassMeans
A long data frame of methylation or bincount values with columns for position, methylation frequency (methFreq), class and replicate.
regionGR
A genomic range for the region that is being plotted
anchorPoint
One of "middle" or "start": the position from which numbering starts
dSMFwin
Width of dSMF score window (default is 1bp)
Value
Returns a GenomicRanges object with absolute genomic coordinates and
methylation score for different classes and replicates in mcols
jsemple19/EMclassifieR documentation built on Aug. 12, 2022, 2:57 p.m.
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| allClassMeansToGR | R Documentation |
Convert allClassMeans table to GenomicRanges
Description
Convert allClassMeans table to GenomicRanges with absolute genomic coordinates and with methylation score at each position for each class and multiple replicates in the metadata columns (required for plotting with Gviz)
Usage
allClassMeansToGR(allClassMeans, regionGR, anchorPoint = "middle", dSMFwin = 1)
Arguments
allClassMeans |
A long data frame of methylation or bincount values with columns for position, methylation frequency (methFreq), class and replicate. |
regionGR |
A genomic range for the region that is being plotted |
anchorPoint |
One of "middle" or "start": the position from which numbering starts |
dSMFwin |
Width of dSMF score window (default is 1bp) |
Value
Returns a GenomicRanges object with absolute genomic coordinates and methylation score for different classes and replicates in mcols
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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