dcifer: Genetic Relatedness Between Polyclonal Infections
An implementation of Dcifer (Distance for complex infections: fast estimation of relatedness), an identity by descent (IBD) based method to calculate genetic relatedness between polyclonal infections from biallelic and multiallelic data. The package includes functions that format and preprocess the data, implement the method, and visualize the results. Gerlovina et al. (2022) <doi:10.1093/genetics/iyac126>.
| Version: | 1.5.2 |
| Depends: | R (≥ 4.4.0) |
| Imports: | stats, utils, graphics |
| Suggests: | knitr, rmarkdown |
| Published: | 2026-05-07 |
| DOI: | 10.32614/CRAN.package.dcifer |
| Author: | Inna Gerlovina 
[aut, cre] |
| Maintainer: | Inna Gerlovina <innager at berkeley.edu> |
| License: | MIT + file LICENSE |
| URL: | https://github.com/EPPIcenter/dcifer, https://eppicenter.github.io/dcifer/ |
| NeedsCompilation: | yes |
| Materials: | NEWS |
| CRAN checks: | dcifer results |
Documentation:
| Reference manual: | dcifer.html , dcifer.pdf |
| Vignettes: |
vignetteDcifer (source, R code) |
Downloads:
| Package source: | dcifer_1.5.2.tar.gz |
| Windows binaries: | r-devel: dcifer_1.5.2.zip, r-release: dcifer_1.5.2.zip, r-oldrel: dcifer_1.5.2.zip |
| macOS binaries: | r-release (arm64): dcifer_1.5.2.tgz, r-oldrel (arm64): dcifer_1.5.2.tgz, r-release (x86_64): dcifer_1.5.2.tgz, r-oldrel (x86_64): dcifer_1.5.2.tgz |
| Old sources: | dcifer archive |
Linking:
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