Package: sequoia 2.11.2
Jisca Huisman
sequoia: Pedigree Inference from SNPs
Multi-generational pedigree inference from incomplete data on hundreds of SNPs, including parentage assignment and sibship clustering. See Huisman (2017) (<doi:10.1111/1755-0998.12665>) for more information.
Authors:
sequoia_2.11.2.tar.gz
sequoia_2.11.2.tar.gz(r-4.5-noble)sequoia_2.11.2.tar.gz(r-4.4-noble)
sequoia.pdf |sequoia.html✨
sequoia/json (API)
NEWS
| # Install 'sequoia' in R: |
| install.packages('sequoia', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- Conf_griffin - Example output from estimating confidence probabilities: griffins
- FieldMums_griffin - Example field-observed mothers: griffins
- Geno_HSg5 - Example genotype file: 'HSg5'
- Geno_griffin - Example genotype file: Griffins
- Inherit_patterns - Inheritance patterns
- LH_HSg5 - Example life history file: 'HSg5'
- LH_griffin - Example life history data: griffins
- MaybeRel_griffin - Example output from check for relatives: griffins
- Ped_HSg5 - Example pedigree: 'HSg5'
- Ped_griffin - Example pedigree: griffins
- SeqOUT_HSg5 - Example output from pedigree inference: 'HSg5'
- SeqOUT_griffin - Example output from pedigree inference: griffins
- SimGeno_example - Example genotype file: 'HSg5'
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 months agofrom:5e5d326363. Checks:OK: 1 WARNING: 1. Indexed: no.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 25 2024 |
| R-4.5-linux-x86_64 | WARNING | Nov 25 2024 |
Exports:CalcBYprobsCalcMaxMismatchCalcOHLLRCalcPairLLCalcRpedCheckGenoComparePairsDyadCompareErrToMEstConfEstErFindFamiliesGenoConvertGetAncestorsgetAssignCatGetDescendantsgetGenerationsGetLLRAgeGetMaybeRelGetRelMLHConvertMakeAgePriorMkGenoErrorsPedComparePedPolishPedStripFIDPlotAgePriorPlotPairLLPlotPedCompPlotRelPairsPlotSeqSumsequoiaSimGenoSnpStatsSummarySeqwriteColumnswriteSeq
Mitochondrial haplotypes
Rendered fromvignette_mtDNA.pdf.asisusingR.rsp::asison Nov 25 2024.Last update: 2024-05-28
Started: 2023-09-06
PedCompare Example (Griffin Pedigree)
Rendered fromPedComp.Rmdusingknitr::rmarkdownon Nov 25 2024.Last update: 2024-05-28
Started: 2021-04-29
Quick start example 1: Simulated data
Rendered fromquick_start_example1.rmdusingknitr::rmarkdownon Nov 25 2024.Last update: 2024-05-28
Started: 2021-04-29
Sequoia - Age 'Prior'
Rendered fromvignette-age.Rmdusingknitr::rmarkdownon Nov 25 2024.Last update: 2024-05-28
Started: 2021-04-29
Sequoia flowchart
Rendered fromflowchart.pdf.asisusingR.rsp::asison Nov 25 2024.Last update: 2024-05-28
Started: 2021-04-29
Sequoia User Guide
Rendered fromvignette-main.Rmdusingknitr::rmarkdownon Nov 25 2024.Last update: 2024-05-28
Started: 2021-04-29
