biscuiteer

DOI:10.18129/B9.bioc.biscuiteer

This is thedevelopmentversion of biscuiteer; for the stable release version, seebiscuiteer.

Convenience Functions for Biscuit

Bioconductor version: Development (3.16)

A test harness for bsseq loading of Biscuit output, summarization of WGBS data over defined regions and in mappable samples, with or without imputation, dropping of mostly-NA rows, age estimates, etc.

Author: Tim Triche [aut], Wanding Zhou [aut], Benjamin Johnson [aut], Jacob Morrison [aut, cre], Lyong Heo [aut], James Eapen [aut]

Maintainer: Jacob Morrison

Installation

To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("biscuiteer")

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

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("biscuiteer")

HTML	R Script	Biscuiteer User Guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	DNAMethylation,DataImport,MethylSeq,Software
Version	1.11.2
In Bioconductor since	BioC 3.10 (R-3.6) (2.5 years)
License	GPL-3
Depends	R (>= 4.1.0),biscuiteerData,bsseq
Imports	readr,qualV,Matrix,impute,HDF5Array,S4Vectors,Rsamtools,data.table,Biobase,GenomicRanges,IRanges,BiocGenerics,VariantAnnotation,DelayedMatrixStats,SummarizedExperiment,GenomeInfoDb,Mus.musculus,Homo.sapiens,matrixStats,rtracklayer,QDNAseq,dmrseq, methods, utils,R.utils,gtools,BiocParallel
LinkingTo
Suggests	DSS,covr,knitr,rmarkdown,markdown,rlang,scmeth,pkgdown,roxygen2,testthat,QDNAseq.hg19,QDNAseq.mm10,BiocStyle
SystemRequirements
Enhances
URL	https://github.com/trichelab/biscuiteer
BugReports	https://github.com/trichelab/biscuiteer/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	biscuiteer_1.11.2.tar.gz
Windows Binary	biscuiteer_1.11.2.zip(64-bit only)
macOS 10.13 (High Sierra)	biscuiteer_1.11.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/biscuiteer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/biscuiteer
Package Short Url	//www.andersvercelli.com/packages/biscuiteer/
Package Downloads Report	Download Stats