Package: ibdsim2 2.1.2
Magnus Dehli Vigeland
ibdsim2: Simulation of Chromosomal Regions Shared by Family Members
Simulation of segments shared identical-by-descent (IBD) by pedigree members. Using sex specific recombination rates along the human genome (Halldorsson et al. (2019) <doi:10.1126/science.aau1043>), phased chromosomes are simulated for all pedigree members. Applications include calculation of realised relatedness coefficients and IBD segment distributions. 'ibdsim2' is part of the 'pedsuite' collection of packages for pedigree analysis. A detailed presentation of the 'pedsuite', including a separate chapter on 'ibdsim2', is available in the book 'Pedigree analysis in R' (Vigeland, 2021, ISBN:9780128244302). A 'Shiny' app for visualising and comparing IBD distributions is available at <https://magnusdv.shinyapps.io/ibdsim2-shiny/>.
Authors:
ibdsim2_2.1.2.tar.gz
ibdsim2_2.1.2.zip(r-4.5)ibdsim2_2.1.2.zip(r-4.4)ibdsim2_2.1.2.zip(r-4.3)
ibdsim2_2.1.2.tgz(r-4.4-x86_64)ibdsim2_2.1.2.tgz(r-4.4-arm64)ibdsim2_2.1.2.tgz(r-4.3-x86_64)ibdsim2_2.1.2.tgz(r-4.3-arm64)
ibdsim2_2.1.2.tar.gz(r-4.5-noble)ibdsim2_2.1.2.tar.gz(r-4.4-noble)
ibdsim2_2.1.2.tgz(r-4.4-emscripten)ibdsim2_2.1.2.tgz(r-4.3-emscripten)
ibdsim2.pdf |ibdsim2.html✨
ibdsim2/json (API)
NEWS
| # Install 'ibdsim2' in R: |
| install.packages('ibdsim2', repos = c('https://magnusdv.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/magnusdv/ibdsim2/issues
identity-by-descentrelatednesssimulation
Last updated 3 months agofrom:c4c30ab954. Checks:OK: 9. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 07 2024 |
| R-4.5-win-x86_64 | OK | Nov 07 2024 |
| R-4.5-linux-x86_64 | OK | Nov 07 2024 |
| R-4.4-win-x86_64 | OK | Nov 07 2024 |
| R-4.4-mac-x86_64 | OK | Nov 07 2024 |
| R-4.4-mac-aarch64 | OK | Nov 07 2024 |
| R-4.3-win-x86_64 | OK | Nov 07 2024 |
| R-4.3-mac-x86_64 | OK | Nov 07 2024 |
| R-4.3-mac-aarch64 | OK | Nov 07 2024 |
Exports:convertPoscustomMapestimateIdentityestimateInbreedingestimateKappaestimateKinshipestimateTwoLocusIdentityestimateTwoLocusInbreedingestimateTwoLocusKappaestimateTwoLocusKinshipextractIdsfindPatternhaploDrawibdsimkaryoHaploidlaunchApploadMapmapLenphysRangeplotSegmentDistributionprofileSimIBDrealisedIdentityrealisedInbreedingrealisedKapparealisedKinshipsegmentStatsuniformMapzeroIBD
Dependencies:clicolorspaceevaluatefansifarverggplot2gluegtablehighrisobandkinship2knitrlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepedmutpedtoolspillarpkgconfigquadprogR6RColorBrewerRcppribdrlangscalesslamtibbleutf8vctrsviridisLitewithrxfunyaml
