source("http://bioconductor.org/biocLite.R")
biocLite("h5vc")

h5vc

Managing alignment tallies using a hdf5 backend

Bioconductor version: 2.13

This package contains functions to interact with tally data from NGS experiments that is stored in HDF5 files. For detail see the webpage at http://www.ebi.ac.uk/~pyl/h5vc.

Author: Paul Theodor Pyl

Maintainer: Paul Theodor Pyl <pyl at embl.de>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("h5vc")

Documentation

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

browseVignettes("h5vc")

 

HTML	R Script	Advanced analyses
HTML	R Script	Building a minimal genome browser with h5vc and shiny
HTML		Creating Tallies with h5py/Python
HTML	R Script	Creating Tallies within R
HTML	R Script	Scalable nucleotide tallies with HDF5
PDF		Reference Manual

Details

biocViews	Software
Version	1.0.6
In Bioconductor since	BioC 2.13 (R-3.0)
License	GPL (>= 3)
Depends
Imports	rhdf5, ggplot2, reshape, bit64, IRanges, GenomicRanges, Biostrings
Suggests	knitr, locfit, deepSNV, BSgenome.Hsapiens.UCSC.hg19, h5vcData
System Requirements
URL
Depends On Me
Imports Me
Suggests Me	h5vcData

Package Archives

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

Package Source	h5vc_1.0.6.tar.gz
Windows Binary	h5vc_1.0.6.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	h5vc_1.0.6.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats