GENEPROB for segregation analysis

 

 

Segregation analysis provides genotype probabilities for known individual loci, given information such as incidence of deleterious recessive conditions, DNA tests for the loci concerned, or discrete phenotypic classification associated with the known locus. This means that information is available on all individuals that are connected by pedigree with the recorded information.

Geneprob was written by Brian Kinghorn and Richard Kerr at the University of New England, including periods when BK was supported by Sygen International plc.

 

Geneprob is for the experienced user. Unfortunately, support in its use is not offered, but the user notes should help you.  It assumes a single biallelic locus.

 

The core algorithm used is described in:  Kerr, R.J. and Kinghorn, B.P.  1996.  An efficient algorithm for segregation analysis in large populations.  J. Anim. Breed.  Genet.  113:457-469.

 

Recent upgrades are accommodation of more than one base population, as described near to the end of the user notes, and the use of phenotype=8 for individuals that are known not to be of genotype 22, which is typical for recessive lethals.

 

Creative Commons License
Executable code for Geneprob by Brian Kinghorn and Richard Kerr is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.

You are free to:

  • Share — copy and redistribute the material in any medium or format
  • Adapt — remix, transform, and build upon the material for any purpose, even commercially.
  • The licensor cannot revoke these freedoms as long as you follow the license terms.

Under the following terms:

·         Attribution — You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.

·         ShareAlike —  If you remix, transform, or build upon the material, you must distribute your contributions under the same license as the original.

  • No additional restrictions — You may not apply legal terms or technological measures that legally restrict others from doing anything the license permits.

 

Attribution can be something like this:  … using Geneprob (http://www-personal.une.edu.au/~bkinghor/geneprob.htm) based on the method of  < Kerr, R.J. and Kinghorn, B.P.  1996.  An efficient algorithm for segregation analysis in large populations.  J. Anim. Breed.  Genet.  113:457-469.>

 

Download Geneprob.zip     Put the contents of this zip file into a folder and read Geneprob user notes.doc

 

Good Luck,   Brian

 

 

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