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CpGassoc
View on CRAN: Click
here
Download and install CpGassoc package within the R console
Install from CRAN:
install.packages("CpGassoc")
Install from Github:
library("remotes")
install_github("cran/CpGassoc")
Install by package version:
library("remotes")
install_version("CpGassoc", "2.70")
Attach the package and use:
library("CpGassoc")
Maintained by
R Barfield
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2012-05-22
Latest Update: 2017-05-30
Description:
Is designed to test for association between methylation at CpG sites across the genome and a phenotype of interest, adjusting for any relevant covariates. The package can perform standard analyses of large datasets very quickly with no need to impute the data. It can also handle mixed effects models with chip or batch entering the model as a random intercept. Also includes tools to apply quality control filters, perform permutation tests, and create QQ plots, manhattan plots, and scatterplots for individual CpG sites.
How to cite:
R Barfield (2012). CpGassoc: Association Between Methylation and a Phenotype of Interest. R package version 2.70, https://cran.r-project.org/web/packages/CpGassoc. Accessed 22 Dec. 2024.
Previous versions and publish date:
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Other R packages that CpGassoc depends,
imports, suggests or enhances
Complete documentation for CpGassoc
Functions, R codes and Examples using
the CpGassoc R package
Some associated functions: CpGassoc-package . Sample.data . cpg.GC . cpg.assoc . cpg.combine . cpg.everything . cpg . cpg.perm . cpg.permject . cpg.qc . cpg.work . design . manhattan . manhattan.reflect . other.functions . scatterplot .
Some associated R codes: CpGassoc-internal.R . cpg.GC.R . cpg.assoc.R . cpg.combine.R . cpg.everything.R . cpg.everything.character.R . cpg.everything.complex.R . cpg.everything.logical.R . cpg.everything.matrix.R . cpg.everything.numeric.R . cpg.length.R . cpg.perm.R . cpg.qc.R . cpg.work.R . cpgassocsummary.R . design.NULL.R . design.R . design.data.frame.R . manhattan.R . manhattan.reflect.R . plot.cpg.R . plot.cpg.perm.R . pointsizefunction.R . print.cpg.R . print.cpg.gc.R . print.cpg.perm.R . print.cpg.perm.gc.R . scatterplot.R . sort.cpg.R . sort.cpg.perm.R . summary.cpg.R . summary.cpg.perm.R . Full CpGassoc package functions and examples
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