methimpute

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see methimpute.

Imputation-guided re-construction of complete methylomes from WGBS data

Bioconductor version: 3.13

This package implements functions for calling methylation for all cytosines in the genome.

Author: Aaron Taudt

Maintainer: Aaron Taudt <aaron.taudt at gmail.com>

Citation (from within R, enter citation("methimpute")):

To install this package, start R (version "4.1") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("methimpute")

For older versions of R, please refer to the appropriate Bioconductor release.

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("methimpute")

Methylation status calling with METHimpute PDF R Script

Reference Manual PDF

NEWS Text

Version 1.14.0

In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)

License Artistic-2.0

Depends R (>= 3.4.0), GenomicRanges, ggplot2

Imports Rcpp (>= 0.12.4.5), methods, utils, grDevices, stats, GenomeInfoDb, IRanges, Biostrings, reshape2, minpack.lm, data.table

System Requirements

URL

Suggests knitr, BiocStyle

Linking To Rcpp

Enhances

Depends On Me

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Follow Installation instructions to use this package in your R session.

Windows Binary methimpute_1.14.0.zip (32- & 64-bit)

macOS 10.13 (High Sierra) methimpute_1.14.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/methimpute

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/methimpute

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Old Source Packages for BioC 3.13 Source Archive