locuszoomr: Gene Locus Plot with Gene Annotations

Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.

Version: 0.3.0
Depends: R (≥ 3.5)
Imports: AnnotationFilter, BiocGenerics, cowplot, dplyr, ensembldb, GenomeInfoDb, GenomicRanges, gggrid, ggplot2, ggrepel, graphics, grDevices, grid, IRanges, LDlinkR, memoise, plotly, rlang, rtracklayer, zoo
Suggests: AnnotationHub, EnsDb.Hsapiens.v75, knitr, rmarkdown
Published: 2024-04-16
Author: Myles Lewis ORCID iD [aut, cre]
Maintainer: Myles Lewis <myles.lewis at qmul.ac.uk>
BugReports: https://github.com/myles-lewis/locuszoomr/issues
License: GPL (≥ 3)
URL: https://github.com/myles-lewis/locuszoomr
NeedsCompilation: no
Language: en-gb
Materials: README NEWS
CRAN checks: locuszoomr results

Documentation:

Reference manual: locuszoomr.pdf
Vignettes: locuszoomr

Downloads:

Package source: locuszoomr_0.3.0.tar.gz
Windows binaries: r-prerel: locuszoomr_0.3.0.zip, r-release: locuszoomr_0.2.1.zip, r-oldrel: locuszoomr_0.3.0.zip
macOS binaries: r-prerel (arm64): locuszoomr_0.3.0.tgz, r-release (arm64): locuszoomr_0.3.0.tgz, r-oldrel (arm64): locuszoomr_0.3.0.tgz, r-prerel (x86_64): locuszoomr_0.3.0.tgz, r-release (x86_64): locuszoomr_0.3.0.tgz
Old sources: locuszoomr archive

Linking:

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