ibdsim2 (Q106122): Difference between revisions
From MaRDI portal
Removed claim: imports (P585): glue (Q31495) |
Added link to MaRDI item. |
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| Property / last update: 7 June 2022 / rank | |||||||||||||||
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| Property / maintained by: Magnus Dehli Vigeland / rank | |||||||||||||||
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| Property / imports: ribd / rank | |||||||||||||||
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| Property / cites work: Characterizing mutagenic effects of recombination through a sequence-level genetic map / rank | |||||||||||||||
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1.1 | |||||||||||||||
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publication date: 28 June 2020
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1.2 | |||||||||||||||
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publication date: 12 July 2020
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publication date: 13 November 2020
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1.4.0 | |||||||||||||||
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publication date: 24 July 2021
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| Property / software version identifier: 2.0.0 / qualifier | |||||||||||||||
publication date: 17 August 2023
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17 August 2023
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| Property / last update: 17 August 2023 / rank | |||||||||||||||
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| Property / maintained by: Magnus Dehli Vigeland / rank | |||||||||||||||
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| Property / description | |||||||||||||||
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 'ped suite' collection of packages for pedigree analysis. A detailed presentation of the 'ped suite', 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/>. | |||||||||||||||
| Property / description: 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 'ped suite' collection of packages for pedigree analysis. A detailed presentation of the 'ped suite', 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/>. / rank | |||||||||||||||
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| Property / author: Magnus Dehli Vigeland / rank | |||||||||||||||
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| Property / copyright license: GNU General Public License, version 3.0 / rank | |||||||||||||||
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| Property / depends on software: R / rank | |||||||||||||||
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| Property / depends on software: R / qualifier | |||||||||||||||
software version identifier: ≥ 4.1.0 | |||||||||||||||
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| Property / depends on software: pedtools / rank | |||||||||||||||
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| Property / depends on software: pedtools / qualifier | |||||||||||||||
software version identifier: ≥ 2.2.0 | |||||||||||||||
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| Property / imports: Rcpp / rank | |||||||||||||||
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| Property / imports: ggplot2 / rank | |||||||||||||||
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| Property / imports: glue / rank | |||||||||||||||
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| Property / imports: ribd / rank | |||||||||||||||
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software version identifier: ≥ 1.5.0 | |||||||||||||||
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| Property / cites work: Characterizing mutagenic effects of recombination through a sequence-level genetic map / rank | |||||||||||||||
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| Property / MaRDI profile type: MaRDI software profile / rank | |||||||||||||||
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| links / mardi / name | links / mardi / name | ||||||||||||||
Latest revision as of 18:56, 12 March 2024
Simulation of Chromosomal Regions Shared by Family Members
| Language | Label | Description | Also known as |
|---|---|---|---|
| English | ibdsim2 |
Simulation of Chromosomal Regions Shared by Family Members |
Statements
17 August 2023
0 references
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 'ped suite' collection of packages for pedigree analysis. A detailed presentation of the 'ped suite', 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/>.
0 references
