dcifer
Genetic Relatedness Between Polyclonal Infections
v1.5.0
·
Nov 10, 2025
·
MIT + file LICENSE
Description
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>.
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CRAN Check Status
1
ERROR
13
OK
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | ERROR |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (1 non-OK)
ERROR
r-oldrel-windows-x86_64
re-building of vignette outputs
Error(s) in re-building vignettes: --- re-building 'vignetteDcifer.Rmd' using rmarkdown ! Package pdftex.def Error: File `8a7895a2c239af380f7e9f0cc68cbcf3da032648.pdf' not found: using draft setting. Error: processing vignette 'vignetteDcifer.Rmd' failed with diagnostics: LaTeX failed to compile D:/RCompile/CRANpkg/local/4.4/dcifer.Rcheck/vign_test/dcifer/vignettes/vignetteDcifer.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See vignetteDcifer.log for more info. --- failed re-building 'vignetteDcifer.Rmd' SUMMARY: processing the following file failed: 'vignetteDcifer.Rmd' Error: Vignette re-building failed. Execution halted
Check History
ERROR 13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 30, 2026
ERROR
r-oldrel-windows-x86_64
re-building of vignette outputs
Error(s) in re-building vignettes: --- re-building 'vignetteDcifer.Rmd' using rmarkdown ! Package pdftex.def Error: File `8a7895a2c239af380f7e9f0cc68cbcf3da032648.pdf' not found: using draft setting. Error: processing vignette 'vignetteDcifer.Rmd' ...[truncated]... rg/tinytex/r/#debugging for debugging tips. See vignetteDcifer.log for more info. --- failed re-building 'vignetteDcifer.Rmd' SUMMARY: processing the following file failed: 'vignetteDcifer.Rmd' Error: Vignette re-building failed. Execution halted