Package: inferRecom 0.99.1

Catherine Mahoney

inferRecom: Homologous Recombination Detection in Family Pedigrees

This package implements a pedigree-based algorithm to detect homologous recombination. Additional functions are supplied to detect runs of homozygosity and to phase haplotypes at informative SNPs.

Authors:Catherine Mahoney [aut, cre], Michael Salter-Townshend [aut], Denis Shields [aut], Irish Research Council [fnd]

inferRecom_0.99.1.tar.gz
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inferRecom_0.99.1.tgz(r-4.6-any)inferRecom_0.99.1.tgz(r-4.5-any)
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inferRecom_0.99.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
inferRecom/json (API)

# Install 'inferRecom' in R:

install.packages('inferRecom', repos = c('https://biocstaging.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/catherinefayemahoney/inferrecom/issues

On CRAN:

genetics snp genomeannotation sequencing coverage

2.70 score 3 exports 42 dependencies

Last updated from:820b7fd7f8. Checks:1 WARNING, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	WARNING	215
linux-devel-x86_64	OK	386
source / vignettes	OK	315
linux-release-x86_64	OK	368
macos-release-arm64	OK	229
macos-oldrel-arm64	OK	173
windows-devel	OK	260
windows-release	OK	275
windows-oldrel	OK	255
wasm-release	OK	230

Exports:hzRun xoDetect xoPhase

Dependencies:abind BH Biobase BiocGenerics BiocParallel cli codetools cpp11 DelayedArray dplyr formatR futile.logger futile.options generics GenomicRanges glue IRanges lambda.r lattice lifecycle magrittr Matrix MatrixGenerics matrixStats pillar pkgconfig R6 rlang S4Arrays S4Vectors Seqinfo snow snpStats SparseArray SummarizedExperiment survival tibble tidyselect utf8 vctrs withr XVector

Detecting Homologous Recombination in Family Pedigrees

Rendered fromrecombination_detection.Rmdusingknitr::rmarkdown

Last update: 2026-01-05
Started: 2026-01-05

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Example Crossover Data	crossoverData
Genetic Maps for Chromosome 4	geneticMaps-data
Detect Runs of Homozygosity in PLINK Genotype Data	hzRun
Example PLINK Dataset - simCEU	simCEU-data
Detect Meiotic Recombinations from PLINK Genotype Data	xoDetect
Phase Haplotypes Using Crossover Information	xoPhase