Tool: DICE: Joint Estimation of Contamination, Error and Demography for Nuclear DNA from Ancient Humans
gravatar for Gabriel R.
3.0 years ago by
Gabriel R.2.6k
Center for Geogenetik Københavns Universitet
Gabriel R.2.6k wrote:

DICE is a program to infer nuclear contamination from present-day humans in ancient DNA datasets using a Bayesian Markov Chain Monte-Carlo (MCMC). It also co-infers the demography and determines the most likely contamination source.

DICE works by computing the likelihood of finding a certain derived allele as contaminant by using the derived allele frequency in a potentially contaminating population. It is also possible that this derived allele is found endogenously in the sample. Given drift parameters, we compute the probability of observing the 3 following genotypes:

(ancestral , ancestral)
(derived , ancestral)
(derived , derived)

given the derived allele frequency in an anchor population. Since both the contamination rate and the demographic parameters depend on each other, we jointly infer them.

Read our paper here:

See the webpage here:

ADD COMMENTlink modified 3.0 years ago • written 3.0 years ago by Gabriel R.2.6k

Is this supposed to be an announcement for DICE or a question about DICE? I don't see any links for the program, if former.

ADD REPLYlink written 3.0 years ago by genomax65k

A tool announcement, sorry forgot the link to the paper and software. Adding it now, thanks!!

ADD REPLYlink written 3.0 years ago by Gabriel R.2.6k
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