To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("IONiseR")

In most cases, you don't need to download the package archive at all.

IONiseR

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see IONiseR.

Quality Assessment Tools for Oxford Nanopore MinION data

Bioconductor version: 3.4

IONiseR provides tools for the quality assessment of Oxford Nanopore MinION data. It extracts summary statistics from a set of fast5 files and can be used either before or after base calling. In addition to standard summaries of the read-types produced, it provides a number of plots for visualising metrics relative to experiment run time or spatially over the surface of a flowcell.

Author: Mike Smith [aut, cre]

Maintainer: Mike Smith <grimbough at gmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("IONiseR")

Documentation

HTML R Script Quality assessment tools for nanopore data
PDF Reference Manual
Text NEWS
Text LICENSE

Details

biocViews DataImport, QualityControl, Sequencing, Software
Version 1.4.4
In Bioconductor since BioC 3.2 (R-3.2) (1.5 years)
License MIT + file LICENSE
Depends R (>= 3.3)
Imports rhdf5, dplyr, magrittr, tidyr, data.table, ShortRead, Biostrings, ggplot2, methods, BiocGenerics, XVector, stats, utils
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, gridExtra, testthat, minionSummaryData
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source IONiseR_1.4.4.tar.gz
Windows Binary IONiseR_1.4.4.zip
Mac OS X 10.9 (Mavericks) IONiseR_1.4.4.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/IONiseR/tree/release-3.4
Package Short Url http://bioconductor.org/packages/IONiseR/
Package Downloads Report Download Stats

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