methimpute
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see methimpute.
Imputation-guided re-construction of complete methylomes from WGBS data
Bioconductor version: 3.9
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")):
Installation
To install this package, start R (version "3.6") 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.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("methimpute")| Methylation status calling with METHimpute | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Coverage, DNAMethylation, Epigenetics, HiddenMarkovModel, ImmunoOncology, Sequencing, Software |
| Version | 1.6.0 |
| 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 |
See More
| Suggests | knitr, BiocStyle |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | methimpute_1.6.0.tar.gz |
| Windows Binary | methimpute_1.6.0.zip |
| Mac OS X 10.11 (El Capitan) | methimpute_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/methimpute |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/methimpute |
| Bioc Package Browser | https://code.bioconductor.org/browse/methimpute/ |
| Package Short Url | https://bioconductor.org/packages/methimpute/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |