diemr: Genome Polarization via Diagnostic Index Expectation Maximization
Implements a likelihood-based method for genome polarization, identifying which alleles of SNV markers belong to either side of a barrier to gene flow. The approach co-estimates individual assignment, barrier strength, and divergence between sides, with direct application to studies of hybridization. Includes VCF-to-diem conversion and input checks, support for mixed ploidy and parallelization, and tools for visualization and diagnostic outputs. Based on diagnostic index expectation maximization as described in Baird et al. (2023) <doi:10.1111/2041-210X.14010>.
| Version: | 1.5.1 |
| Imports: | zoo, vcfR, data.table, circlize |
| Suggests: | testthat (≥ 3.0.0), knitr, rmarkdown |
| Published: | 2025-10-09 |
| DOI: | 10.32614/CRAN.package.diemr |
| Author: | Natalia Martinkova
 [aut, cre],
Stuart Baird
[aut] |
| Maintainer: | Natalia Martinkova <martinkova at ivb.cz> |
| BugReports: | https://github.com/nmartinkova/diemr/issues |
| License: | GPL (≥ 3) |
| URL: | https://nmartinkova.github.io/genome-polarisation/ |
| NeedsCompilation: | no |
| Citation: | diemr citation info |
| Materials: | README, NEWS |
| CRAN checks: | diemr results |
Documentation:
| Reference manual: | diemr.html , diemr.pdf |
| Vignettes: |
Importing data for genome polarisation (source, R code) Understanding genome polarisation output files (source, R code) diemr: Diagnostic index expectation maximisation in R (source, R code) |
Downloads:
| Package source: | diemr_1.5.1.tar.gz |
| Windows binaries: | r-devel: diemr_1.5.zip, r-release: diemr_1.5.1.zip, r-oldrel: diemr_1.5.1.zip |
| macOS binaries: | r-release (arm64): diemr_1.5.1.tgz, r-oldrel (arm64): diemr_1.5.1.tgz, r-release (x86_64): diemr_1.5.1.tgz, r-oldrel (x86_64): diemr_1.5.1.tgz |
| Old sources: | diemr archive |
Linking:
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