PorexploreR is a package for exploring raw Nanopore sequencing signals.
You can install the released version of PorexploreR from GitHub with:
if (!require(remotes)) install.packaages("remotes")
remotes::install_github("shians/PorexploreR")library(PorexploreR)
# get example file from package
fast5_file <- system.file("extdata/NA12878_short_read2.fast5", package = "PorexploreR")
# load in the squiggle
squiggle <- Squiggle(fast5_file)
# plot the squiggle
plot_squiggle(squiggle)
# some other information obtainable
raw_signal(squiggle) # signal as stored in fast5 file
signal(squiggle) # signal transformed to pA scale
meta(squiggle) # metadata used to transform signal- NanoR - A user-friendly R package to analyze and compare nanopore sequencing data.
- poRe - An R package to enable visualisation of nanopore sequencing data.
- IONiseR - Quality assessment tools for Oxford Nanopore MinION data.
- A Look at the Nanopore fast5 Format - My blog article on exploring the fast5 format.