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  [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:
Downloads:
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