In magnusdv/pedsuite: Easy Installation of the 'pedsuite' Packages for Pedigree Analysis

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Kinship Statistics and Pedigree Analysis

• Date: Tuesday, 10th of September, 2024
• Where: San Francisco Hotel Monumento, Santiago de Compostela, Spain
• Teachers: Magnus Dehli Vigeland and Thore Egeland
• ISFG 2024 workshops: https://isfg2024.com/pre-congress-workshops/

Description

The study of pedigrees and genetic relatedness is central in forensic genetics. The aim of this course is to introduce the elegant statistical foundations of relatedness, as well as several forensic applications. In certain parts we use R for calculations and visualisations. In the basic session we will focus on pedigree coefficients and likelihood ratios for kinship analysis. In addition, we will demonstrate QuickPed, an online tool for creating pedigrees and computing relatedness: https://magnusdv.shinyapps.io/quickped

In the advanced part we will explore recently developed methods and implementations for Disaster Victim Identification (DVI) and pedigree reconstruction.

The course material is based on the book Pedigree Analysis in R (Vigeland '21) and selected papers. Each session will alternate between lectures and hands-on exercises. Solutions for all exercises will be provided and discussed at the end of each session.

Attendance in the ‘Basic session’ is not required for the ‘Advanced session’ for participants who are familiar with R.

Learning outcome

After completing the course the participants will have knowledge about:

• Classical concepts of statistical genetics and relatedness analysis
• How to produce informative and beautiful pedigree plots
• How to compute coefficients of relatedness
• How to perform kinship testing and pedigree reconstruction in R
• How to perform disaster victim identification in R

Prerequisites

• Basic knowledge of genetics and probability
• All participants must bring a laptop with administrative rights
• A recent version of R (at least 4.1) must be installed on your computer
• Some previous experience with R is recommended, but not strictly required
• We strongly recommend running R from RStudio

Schedule

The workshop is run as a full-day course on Tuesday 10th, from 9 to 18:30 (CEST). The following schedule is tentative:

link = pedsuite:::linkFUN(folder = "courses/isfg2024")

Morning session -- Pedigree analysis: Basic

• 09:00--10:00 r link("Pedigrees and measures of relatedness", "Lecture1_pedigrees.pdf") (MDV)
• 10:00--11:00 r link("Exercises I", "exercises1.pdf")
• 11:00--11:15 Break
• 11:15--12:00 r link("Kinship testing", "Lecture2-Kinship.pdf") (TE)
• 12:00--12:45 r link("Exercises II", "exercises2.pdf")
• 12:45--13:00 Summary and discussion

**Lunch break 13:00 - 14:30**

Afternoon session -- Pedigree analysis: Advanced

• 14:30--15:30 r link("Relatedness inference and pedigree reconstruction", "Lecture3-reconstruction.pdf") (MDV)
• 15:30--16:15 r link("Exercises III", "exercises3.pdf")
• 16:15--16:30 Break
• 16:30--17:30 r link("Disaster victim identification", "Lecture4-DVI.pdf") (TE)
• 17:30--18:15 r link("Exercises IV", "exercises4.pdf")
• 18:15--18:30 Summary and discussion

Solutions to the exercises can be requested by email to magnusdv at gmail dot com.

magnusdv/pedsuite documentation built on Nov. 4, 2024, 9:36 p.m.