h5vc
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see h5vc.
Managing alignment tallies using a hdf5 backend
Bioconductor version: 3.13
This package contains functions to interact with tally data from NGS experiments that is stored in HDF5 files.
Author: Paul Theodor Pyl
Maintainer: Paul Theodor Pyl <paul.theodor.pyl at gmail.com>
Citation (from within R, enter
citation("h5vc")
):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("h5vc")
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("h5vc")
Building a minimal genome browser with h5vc and shiny | HTML | R Script |
h5vc -- Tour | HTML | R Script |
Reference Manual |
Details
biocViews | Software |
Version | 2.26.1 |
In Bioconductor since | BioC 2.13 (R-3.0) (10.5 years) |
License | GPL (>= 3) |
Depends | grid, gridExtra, ggplot2 |
Imports | rhdf5, reshape, S4Vectors, IRanges, Biostrings, Rsamtools(>= 1.99.1), methods, GenomicRanges, abind, BiocParallel, BatchJobs, h5vcData, GenomeInfoDb |
System Requirements | GNU make |
URL |
See More
Suggests | knitr, locfit, BSgenome.Hsapiens.UCSC.hg19, biomaRt, BSgenome.Hsapiens.NCBI.GRCh38, RUnit, BiocGenerics |
Linking To | Rhtslib(>= 1.15.3) |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | h5vcData |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | h5vc_2.26.1.tar.gz |
Windows Binary | h5vc_2.26.1.zip (32- & 64-bit) |
macOS 10.13 (High Sierra) | h5vc_2.26.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/h5vc |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/h5vc |
Bioc Package Browser | https://code.bioconductor.org/browse/h5vc/ |
Package Short Url | https://bioconductor.org/packages/h5vc/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.13 | Source Archive |