modmolcmap: Identifies and documents the methylation and nick labels
In VilainLab/methometR: methometR: Extracting methylation information from Optical Genome Maps
Description
Usage
Arguments
Value
Examples
View source: R/methylationAnalysis_Step1.r
Description
Identifies and documents the methylation and nick labels
Usage
1
modmolcmap(molcmap, xmapdata, cntNick, cntMeth)
Arguments
molcmap
character. Path to Bionano molecule cmap.
xmapdata
character. Path to Bionano molecule contig xmap.
cntNick
integer. Nick label value.
cntMeth
integer. Meth label value.
Value
Data Frame with the molecule cmap, with the exact site number
for methylation and nick labels.
Examples
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xmap <- system.file("extdata", "Cmapdir/output/contigs/exp_refineFinal1/merged_smaps/SampContigMolecule.xmap", package="methometR")
cmap <- system.file("extdata", "Cmapdir/output/contigs/exp_refineFinal1/merged_smaps/SampMolecule_q.cmap", package="methometR")
modcmap <- readingCmap(cmap)
modxmap <- readingXmap(xmap)
modMolcmap <- modmolcmap(molcmap = modcmap,
xmapdata = modxmap,
cntNick = 1,
cntMeth=2)
VilainLab/methometR documentation built on Dec. 18, 2021, 6:17 p.m.
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Description Usage Arguments Value Examples
View source: R/methylationAnalysis_Step1.r
Description
Identifies and documents the methylation and nick labels
Usage
1 | modmolcmap(molcmap, xmapdata, cntNick, cntMeth)
|
Arguments
molcmap |
character. Path to Bionano molecule cmap. |
xmapdata |
character. Path to Bionano molecule contig xmap. |
cntNick |
integer. Nick label value. |
cntMeth |
integer. Meth label value. |
Value
Data Frame with the molecule cmap, with the exact site number for methylation and nick labels.
Examples
1 2 3 4 5 6 7 8 | xmap <- system.file("extdata", "Cmapdir/output/contigs/exp_refineFinal1/merged_smaps/SampContigMolecule.xmap", package="methometR")
cmap <- system.file("extdata", "Cmapdir/output/contigs/exp_refineFinal1/merged_smaps/SampMolecule_q.cmap", package="methometR")
modcmap <- readingCmap(cmap)
modxmap <- readingXmap(xmap)
modMolcmap <- modmolcmap(molcmap = modcmap,
xmapdata = modxmap,
cntNick = 1,
cntMeth=2)
|
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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