Package: dcifer 1.3.0

Inna Gerlovina

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>.

Authors:Inna Gerlovina [aut, cre]

dcifer_1.3.0.tar.gz
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dcifer.pdf |dcifer.html✨
dcifer/json (API)
NEWS

# Install 'dcifer' in R:
install.packages('dcifer', repos = c('https://plasmogenepi.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/eppicenter/dcifer/issues

Datasets:

On CRAN:

15 exports 5 stars 4.78 score 0 dependencies 12 scripts 225 downloads

Last updated 5 months agofrom:ac888d189c. Checks:OK: 9. Indexed: no.

TargetResultDate
Doc / VignettesOKSep 20 2024
R-4.5-win-x86_64OKSep 20 2024
R-4.5-linux-x86_64OKSep 20 2024
R-4.4-win-x86_64OKSep 20 2024
R-4.4-mac-x86_64OKSep 20 2024
R-4.4-mac-aarch64OKSep 20 2024
R-4.3-win-x86_64OKSep 20 2024
R-4.3-mac-x86_64OKSep 20 2024
R-4.3-mac-aarch64OKSep 20 2024

Exports:calcAfreqformatAfreqformatDatgenerateRevalgetCOIibdDatibdEstMibdPairlogRevalmatchAfreqplotColorbarplotRelprobUxUyreadAfreqreadDat

Dependencies:

Dcifer: Genetic Distance Between Polyclonal Infections

Rendered fromvignetteDcifer.Rmdusingknitr::rmarkdownon Sep 20 2024.

Last update: 2023-12-11
Started: 2022-06-05