IONiseR: Quality Assessment Tools for Oxford Nanopore MinION data

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.

AuthorMike Smith [aut, cre]
Date of publicationNone
MaintainerMike Smith <grimbough@gmail.com>
LicenseMIT + file LICENSE
Version1.4.3

View on Bioconductor

Files in this package

IONiseR/DESCRIPTION
IONiseR/LICENSE
IONiseR/NAMESPACE
IONiseR/NEWS
IONiseR/R
IONiseR/R/IONiseR.R IONiseR/R/Methods-accessors.R IONiseR/R/Methods-subsetting.R IONiseR/R/classes.R IONiseR/R/fast5Readers.R IONiseR/R/fastqProcessing.R IONiseR/R/plotting_kmers.R IONiseR/R/plotting_layout.R IONiseR/R/plotting_summaryStats.R IONiseR/R/processing_bam.R IONiseR/R/readSummary.R
IONiseR/build
IONiseR/build/vignette.rds
IONiseR/inst
IONiseR/inst/doc
IONiseR/inst/doc/IONiseR.R
IONiseR/inst/doc/IONiseR.Rmd
IONiseR/inst/doc/IONiseR.html
IONiseR/inst/extdata
IONiseR/inst/extdata/example.fast5
IONiseR/inst/extdata/example_v2.fast5
IONiseR/man
IONiseR/man/Fast5Summary-class.Rd IONiseR/man/IONiseR.Rd IONiseR/man/baseCalled.Rd IONiseR/man/channelActivityPlot.Rd IONiseR/man/channelHeatmap.Rd IONiseR/man/fastq.Rd IONiseR/man/fastq2D.Rd IONiseR/man/fastqComplement.Rd IONiseR/man/fastqTemplate.Rd IONiseR/man/layoutPlot.Rd IONiseR/man/muxHeatmap.Rd IONiseR/man/plotActiveChannels.Rd IONiseR/man/plotBaseProductionRate.Rd IONiseR/man/plotCurrentByTime.Rd IONiseR/man/plotEventRate.Rd IONiseR/man/plotKmerFrequencyCorrelation.Rd IONiseR/man/plotReadAccumulation.Rd IONiseR/man/plotReadCategoryCounts.Rd IONiseR/man/plotReadCategoryQuals.Rd IONiseR/man/plotReadTypeProduction.Rd IONiseR/man/rawData.Rd IONiseR/man/readFast5Summary.Rd IONiseR/man/readInfo.Rd
IONiseR/tests
IONiseR/tests/testthat
IONiseR/tests/testthat.R
IONiseR/tests/testthat/test_Fast5Summary.R
IONiseR/vignettes
IONiseR/vignettes/ChannelKmer.png
IONiseR/vignettes/IONiseR.Rmd
IONiseR/vignettes/bibliography.bib
IONiseR/vignettes/bmc-bioinformatics.csl

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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