bsseq_to_edger: Convert BSseq object to edgeR methylation matrix
In Shians/NanoMethViz: Visualise methylation data from Oxford Nanopore sequencing
View source: R/bsseq_to_edger.R
bsseq_to_edger R Documentation
Convert BSseq object to edgeR methylation matrix
Description
Convert BSseq object to edgeR methylation matrix
Usage
bsseq_to_edger(bsseq, regions = NULL)
Arguments
bsseq
the BSseq object.
regions
the regions to calculate log-methylation ratios over. If left NULL, ratios will be calculated per
site.
Value
a matrix compatible with the edgeR differential methylation pipeline
Examples
methy <- system.file("methy_subset.tsv.bgz", package = "NanoMethViz")
bsseq <- methy_to_bsseq(methy)
edger_mat <- bsseq_to_edger(bsseq)
Shians/NanoMethViz documentation built on May 24, 2024, 4:11 a.m.
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View source: R/bsseq_to_edger.R
| bsseq_to_edger | R Documentation |
Convert BSseq object to edgeR methylation matrix
Description
Convert BSseq object to edgeR methylation matrix
Usage
bsseq_to_edger(bsseq, regions = NULL)
Arguments
bsseq |
the BSseq object. |
regions |
the regions to calculate log-methylation ratios over. If left NULL, ratios will be calculated per site. |
Value
a matrix compatible with the edgeR differential methylation pipeline
Examples
methy <- system.file("methy_subset.tsv.bgz", package = "NanoMethViz")
bsseq <- methy_to_bsseq(methy)
edger_mat <- bsseq_to_edger(bsseq)
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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