Package: NanoMethViz
Type: Package
Title: Visualise methylation data from Oxford Nanopore sequencing
Version: 3.6.0
Authors@R: c(
    person("Shian", "Su", email = "su.s@wehi.edu.au", role = c("cre", "aut")))
Description: NanoMethViz is a toolkit for visualising methylation data
        from Oxford Nanopore sequencing. It can be used to explore
        methylation patterns from reads derived from Oxford Nanopore
        direct DNA sequencing with methylation called by callers
        including nanopolish, f5c and megalodon. The plots in this
        package allow the visualisation of methylation profiles
        aggregated over experimental groups and across classes of
        genomic features.
biocViews: Software, LongRead, Visualization, DifferentialMethylation,
        DNAMethylation, Epigenetics, DataImport
URL: https://github.com/shians/NanoMethViz,
        https://shians.github.io/NanoMethViz/
BugReports: https://github.com/Shians/NanoMethViz/issues
Depends: R (>= 4.0.0), methods, ggplot2 (>= 3.4.0)
Imports: cpp11 (>= 0.2.5), readr, cli, S4Vectors, SummarizedExperiment,
        BiocSingular, bsseq, forcats, assertthat, AnnotationDbi, Rcpp,
        dplyr, dbscan, e1071, fs, GenomicRanges, Biostrings, ggrastr,
        glue, graphics, IRanges, limma (>= 3.44.0), patchwork, purrr,
        rlang, R.utils, Rsamtools, scales (>= 1.2.0), stats, stringr,
        tibble, tidyr, utils, withr
Suggests: BiocStyle, DSS, Mus.musculus (>= 1.3.1), Homo.sapiens (>=
        1.3.1), org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene,
        TxDb.Hsapiens.UCSC.hg38.knownGene, org.Mm.eg.db,
        TxDb.Mmusculus.UCSC.mm10.knownGene,
        TxDb.Mmusculus.UCSC.mm39.refGene, knitr, rmarkdown,
        rtracklayer, testthat (>= 3.0.0), covr
LinkingTo: Rcpp
License: Apache License (>= 2.0)
SystemRequirements: C++20
VignetteBuilder: knitr
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Config/testthat/parallel: true
Config/testthat/edition: 3
Config/pak/sysreqs: libcairo2-dev libfontconfig1-dev libfreetype6-dev
        libfribidi-dev make libharfbuzz-dev libbz2-dev libicu-dev
        libjpeg-dev liblzma-dev libpng-dev libtiff-dev libwebp-dev
        libxml2-dev libssl-dev libx11-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:04:08 UTC
RemoteUrl: https://github.com/bioc/NanoMethViz
RemoteRef: RELEASE_3_22
RemoteSha: 836d7c67bbdbe5e6402439512cbc352c7d45ca5a
NeedsCompilation: yes
Packaged: 2025-11-11 16:19:49 UTC; root
Author: Shian Su [cre, aut]
Maintainer: Shian Su <su.s@wehi.edu.au>
Built: R 4.5.2; x86_64-w64-mingw32; 2025-11-12 03:02:45 UTC; windows
Archs: x64
