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This is the development version of h5vc; for the stable release version, see h5vc.

Managing alignment tallies using a hdf5 backend

Bioconductor version: Development (3.20)

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>

Citation (from within R, enter citation("h5vc")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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:

Building a minimal genome browser with h5vc and shiny HTML R Script
h5vc -- Tour HTML R Script
Reference Manual PDF


biocViews Software
Version 2.39.0
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(>= 2.13.1), methods, GenomicRanges, abind, BiocParallel, BatchJobs, h5vcData, GenomeInfoDb
System Requirements GNU make
See More
Suggests knitr, locfit, BSgenome.Hsapiens.UCSC.hg19, biomaRt, BSgenome.Hsapiens.NCBI.GRCh38, RUnit, BiocGenerics, rmarkdown
Linking To Rhtslib(>= 1.99.1)
Depends On Me
Imports Me
Suggests Me h5vcData
Links To Me
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Package Archives

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

Source Package h5vc_2.39.0.tar.gz
Windows Binary
macOS Binary (x86_64) h5vc_2.39.0.tgz
macOS Binary (arm64) h5vc_2.39.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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