diCal 1.3 / diCal-IBD 1.0
:: DESCRIPTION
diCal is a scalable demographic inference method based on the sequentially Markov conditional sampling distribution framework.
diCal-IBD can be used for predicting identical by descent (IBD) tracts in sequence data. It provides means for calculating the accuracy of the prediction, if the true tracts are available, plotting of the predicted tracts, their TMRCA (time to the most recent common ancestor) and corresponding posterior probabilities, and identification of putative recent positive selection through investigation of average IBD sharing
::DEVELOPER
The Biophysics Graduate Group, Yun S. Song
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/MacOsX
- Python
:: DOWNLOAD
:: MORE INFORMATION
Citation
Genetics. 2013 Jul;194(3):647-62. doi: 10.1534/genetics.112.149096. Epub 2013 Apr 22.
Estimating variable effective population sizes from multiple genomes: a sequentially markov conditional sampling distribution approach.
Sheehan S1, Harris K, Song YS.
diCal-IBD: demography-aware inference of identity-by-descent tracts in unrelated individuals.
Tataru P, Nirody JA, Song YS.
Bioinformatics. 2014 Aug 21. pii: btu563