IONiseR
This is thereleased version of IONiseR; for the devel version, seeIONiseR.
Quality Assessment Tools for Oxford Nanopore MinION data
Bioconductor version: Release (3.22)
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("IONiseR")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("IONiseR")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("IONiseR")| Quality assessment tools for nanopore data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport,QualityControl,Sequencing,Software |
| Version | 2.34.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (10 years) |
| License | MIT + fileLICENSE |
| Depends | R (>= 3.4) |
| Imports | rhdf5,dplyr,magrittr,tidyr,ShortRead,Biostrings,ggplot2, methods,BiocGenerics,XVector,tibble, stats,BiocParallel,bit64,stringr, utils |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle,knitr,rmarkdown,gridExtra,testthat,minionSummaryData |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | IONiseR_2.34.0.tar.gz |
| Windows Binary (x86_64) | IONiseR_2.34.0.zip |
| macOS Binary (x86_64) | IONiseR_2.34.0.tgz |
| macOS Binary (arm64) | IONiseR_2.34.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/IONiseR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/IONiseR |
| Bioc Package Browser | https://code.bioconductor.org/browse/IONiseR/ |
| Package Short Url | https://bioconductor.org/packages/IONiseR/ |
| Package Downloads Report | Download Stats |