crosshap: Local Haplotype Clustering and Visualization
A local haplotyping visualization toolbox to capture major patterns of co-inheritance between clusters of linked variants, whilst connecting findings to phenotypic and demographic traits across individuals. 'crosshap' enables users to explore and understand genomic variation across a trait-associated region. For an example of successful local haplotype analysis, see Marsh et al. (2022) <doi:10.1007/s00122-022-04045-8>.
| Version: | 1.4.0 |
| Depends: | R (≥ 4.00) |
| Imports: | cli, clustree, data.table, dbscan, dplyr, ggdist, ggplot2, ggpp, gridExtra, gtable, magrittr, patchwork, rlang, scales, tibble, tidyr |
| Suggests: | covr, knitr, rmarkdown, testthat (≥ 3.0.0), umap, vdiffr |
| Published: | 2024-03-31 |
| DOI: | 10.32614/CRAN.package.crosshap |
| Author: | Jacob Marsh  [aut,
cre],
Brady Johnston
[aut],
Jakob Petereit
[aut] |
| Maintainer: | Jacob Marsh <jake.marsh at live.com.au> |
| BugReports: | https://github.com/jacobimarsh/crosshap/issues |
| License: | MIT + file LICENSE |
| URL: | https://jacobimarsh.github.io/crosshap/ |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | crosshap results |
Documentation:
| Reference manual: | crosshap.html , crosshap.pdf |
Downloads:
| Package source: | crosshap_1.4.0.tar.gz |
| Windows binaries: | r-devel: crosshap_1.4.0.zip, r-release: crosshap_1.4.0.zip, r-oldrel: crosshap_1.4.0.zip |
| macOS binaries: | r-release (arm64): crosshap_1.4.0.tgz, r-oldrel (arm64): crosshap_1.4.0.tgz, r-release (x86_64): crosshap_1.4.0.tgz, r-oldrel (x86_64): crosshap_1.4.0.tgz |
| Old sources: | crosshap archive |
Linking:
Please use the canonical form https://CRAN.R-project.org/package=crosshap to link to this page.