Pedigree Reconstruction

A fast and flexible parentage inference program for natural populations.

Features:

1. Statistical confidence by MCMC
   

2. Incorporation of prior knowledge (sub-pedigrees, age, sex, sampling locations, siblings)
   

3. Simulated Annealing to find the Maximum Likelihood Pedigree as described in Almudevar (2003)
   

4. Exact algorithm for finding the Maximum Likelihood Pedigree for datasets with up to 30 individuals as described in Cowell (2009). Available in FRANz II..
   

5. Allele Frequency analyses (exact HWE test, null allele frequency estimation, ...)
   

6. Exclusion and Identity probabilities to estimate the power of the marker suite
   

7. Fullsib detection
   

8. Typing errors and mutations
   

9. Graphviz output
   

10. Fast. Analyze datasets with many thousand individuals within minutes!
    

11. GPL
    

Publications:

FRANz: Reconstruction of wild multi-generation pedigrees.
Markus Riester, Peter F Stadler, Konstantin Klemm. Bioinformatics. 2009. 25:2134-2139.

Reconstruction of pedigrees in clonal plant populations.
Markus Riester, Peter F Stadler, Konstantin Klemm. TPB. 2010. 78(2):109-117.

Feedback: Do you have some ideas or feature requests? Let us know!

Help Forum

Latest Beta of FRANz II. with support for clonal populations:

Repository (Beta Builds for Windows and Mac available)