calculate.epipolymorphism: calculate.epipolymorphism
In schmic05/ISH_package: R package for the calculation of the following Within-Sample Heterogeneity Scores in Bisulfite Sequencing Data: FDRP, qFDRP, PDR, Epipolymorphism, Methylation Entropy and MHL
Description
Usage
Arguments
Value
View source: R/calculate_scores.R
Description
This function calculates Epipolymorphism by calling the methclone software to compute epiallele frequencies and
then uses the definition of epipolymorphism for the calculation.
Usage
1
2
3
4
5
calculate.epipolymorphism(
bam.file,
out.folder = getwd(),
out.name = "methclone"
)
Arguments
bam.file
path to bam file containing the reads of the data set
out.folder
folder to store the temporary file produced by methclone
out.name
name of temporary file
Value
a data frame containing the position in the reference genome and the Epipolymorphism scores
schmic05/ISH_package documentation built on March 18, 2021, 5:42 p.m.
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Description Usage Arguments Value
View source: R/calculate_scores.R
Description
This function calculates Epipolymorphism by calling the methclone software to compute epiallele frequencies and then uses the definition of epipolymorphism for the calculation.
Usage
1 2 3 4 5 | calculate.epipolymorphism(
bam.file,
out.folder = getwd(),
out.name = "methclone"
)
|
Arguments
bam.file |
path to bam file containing the reads of the data set |
out.folder |
folder to store the temporary file produced by methclone |
out.name |
name of temporary file |
Value
a data frame containing the position in the reference genome and the Epipolymorphism scores
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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