Program SAGF 2016 Workshop: X-chromosomal markers and FamLinkX

• The workshop provides the necessary X-chromosomal background for relationship inference using X-chromosomal markers. Statistical methods are introduced and the freely available software FamLinkX is exemplified. The open software R is introduced, and the relevance for X-chromosomal applications and plotting of Familias pedigrees is demonstrated.
• Lectures will be in Spanish and English (with brief translations).
• The hands on exercises are mostly based on FamLinkX, developed by Daniel Kling. The participants should bring a laptop with FamLinkX, preferably last version downloaded . The open softwares R and Familias will also be used (to a smaller extent) and should be downloaded.
• Assistance for installation will be provided at the workshop, if needed. Note that installation is typically only possible if you are administrator on your laptop.

• 09.00 − 09.15 Practical Information. Course organiser
• 09.15 − 10.30 Likelihood ratios with X examples. Leonor Gusmão
• 10.30 − 11.00 Coffee break
• 11.00 − 12.30 The usefulness of X chromosome markers in kinship analysis (previous presentation continues). Leonor Gusmão
• 12.30 − 13.30 Lunch
• 13.30 − 15.45 Practical info: programs and files needed. Repetition, haplotype frequencies: X-linked markers. FamLinkX demo. (Here's a video version of a demo.) Thore Egeland
• 15.45 − 16.15 Coffee break
• 16.15 − 18.00 Exercises: The FamLinkX exercises 4.12-4.14, 4.16-4.17 are from the book "Relationship Inference with Familias and R" by Egeland, Kling, and Mostad available from Elsevier. The required material is freely available: exercises , solutions , zipped input files . Thore Egeland

• 09.00 − 09.30 Repetition. Discussion of exercises. Thore Egeland
• 09.30 − 10.30 Brief introduction to R. Estimating haplotype frequencies in R. Thore Egeland
• 10.30 − 11.00 Coffee break
• 11.00 − 11.50 Finish previous exercises. Use R to estimate lambda in Exercises 4.16 and 4.17
• 11.50 − 12.30 Identificación de restos humanos en casos complejos mediante el uso del kit Investigator Argus X-12. M. en C. Mauro López Armenta, Jefe de U.D. de Genética del Instituto de Ciencias Forenses de la Cd de México
• 12.30 − 13.30 Lunch
• 13.30 − 15.45 Plotting Familias pedigrees in R. The R packages paramlink and Familias (R version) will be demonstrated. Thore Egeland
• 15.45 − 16.15 Coffee break
• 16.15 − 17.30 Exercise P1, at end of last lecture . Exercise 4.18. Finish previous exercises. Exercise 4.15. Thore Egeland
• 17.30 − 18.00 Final discussions.