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For paired-end reads, the mates originate from a single fragment and their likelihood is inferred jointly.
Genotypes of missing markers were generated randomly in each iteration on the basis of the probability inferred jointly from the nearest non-missing flanking markers and the phenotype.
A better approach is the one implemented in ClonalOrigin (Didelot et al. 2010), where the source of recombined fragments is inferred jointly with the recombination events rather than relying on a postprocessing step.
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We jointly inferred the phases of these SNPs and segregation pattern (offspring genotypes) in the mapping cross for each marker in a maximum likelihood framework (Methods).
The best-fit models were used for each partition, but the values of the model parameters were jointly inferred in the run.
This method for estimating allele age has been used by Coop and Griffiths (2004), Saunders et al. (2005) and Wood et al. (2005), while it is different from the Bayesian approach of Slatkin (2008), who assumed a prior for allele age and jointly inferred both selection intensity and allele age.
The central computer listens to the polyphonic music played by all parties and jointly infers the tempo, and bar position, and the acoustic event.
In this study, the aim of the perception model is to jointly infer the tempo and the beat position (score position) of a human performer from streaming polyphonic audio data in an online fashion.
First, case data were insufficient for us to jointly infer serial interval and transmissibility.
The program BPP3 [ 69, 70] was used to jointly infer the species tree and species limits.
We propose to jointly infer the structure X and the distributions of contact counts μ ij 's by maximizing the likelihood of the observed contact counts.
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