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Crossover analysis and genetic map construction

Bioconductor version: Release (3.19)

comapr detects crossover intervals for single gametes from their haplotype states sequences and stores the crossovers in GRanges object. The genetic distances can then be calculated via the mapping functions using estimated crossover rates for maker intervals. Visualisation functions for plotting interval-based genetic map or cumulative genetic distances are implemented, which help reveal the variation of crossovers landscapes across the genome and across individuals.

Author: Ruqian Lyu [aut, cre]

Maintainer: Ruqian Lyu < at>

Citation (from within R, enter citation("comapr")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Get-Started-With-comapr HTML R Script
single-sperm-co-analysis HTML R Script
Reference Manual PDF


biocViews Genetics, SingleCell, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License MIT + file LICENSE
Depends R (>= 4.1.0)
Imports methods, ggplot2, reshape2, dplyr, gridExtra, plotly, circlize, rlang, GenomicRanges, IRanges, foreach, BiocParallel, GenomeInfoDb, scales, RColorBrewer, tidyr, S4Vectors, utils, Matrix, grid, stats, SummarizedExperiment, plyr, Gviz
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Suggests BiocStyle, knitr, rmarkdown, testthat (>= 2.1.0), statmod
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Source Package comapr_1.8.0.tar.gz
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