getMetaMethFreq: Calculate methylation frequency at each position for metagene...
In jsemple19/methMatrix: Manipulate Lists of Methylation Matrices
View source: R/methMatrixManipulation.R
getMetaMethFreq R Documentation
Calculate methylation frequency at each position for metagene plots
Description
Calculate methylation frequency at each position for metagene plots
Usage
getMetaMethFreq(matList, regionGRs, minReads = 50)
Arguments
matList
A table of filepaths of methylation matrices with names that match the regionsGRs object
regionGRs
A genomicRanges object of the regions for which aggregate methylation frequency
will be calculated. the object must contain a metadata column called "ID" containing names that
match the methylation matrices in matList
minReads
The minimal number of reads a matrix must have in order to be used (default=50)
Value
A long form dataframe with four columns: "position" is the C position within the genomic Ranges,
"methFreq" is the frequency of methylation at that position, "ID" is the name of the region, "chr"
is the chromosome on which that region is present.
jsemple19/methMatrix documentation built on Aug. 19, 2022, 3:57 p.m.
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View source: R/methMatrixManipulation.R
| getMetaMethFreq | R Documentation |
Calculate methylation frequency at each position for metagene plots
Description
Calculate methylation frequency at each position for metagene plots
Usage
getMetaMethFreq(matList, regionGRs, minReads = 50)
Arguments
matList |
A table of filepaths of methylation matrices with names that match the regionsGRs object |
regionGRs |
A genomicRanges object of the regions for which aggregate methylation frequency will be calculated. the object must contain a metadata column called "ID" containing names that match the methylation matrices in matList |
minReads |
The minimal number of reads a matrix must have in order to be used (default=50) |
Value
A long form dataframe with four columns: "position" is the C position within the genomic Ranges, "methFreq" is the frequency of methylation at that position, "ID" is the name of the region, "chr" is the chromosome on which that region is present.
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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