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Given a certain error pattern, if the Hamming distance between signal vector s and estimated vector s ̂ is K, then s and s ̂ differ at K places denoted as i1,…,i…,i K.
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As a matter of fact, given a certain bit error rate and assuming the errors are i.i.d.i.d
If only a single pair explains phase given a certain tolerance for error this pair of haplotypes is assumed to explain the phase of the unphased loci in the core.
If more than 1 pair explains phase given a certain tolerance for error a k-medoids type clustering algorithm (described above) is invoked to make two clusters out of the candidate haplotypes.
If neither of the proband's gametes is completely phased the library is searched for candidate haplotypes which agree given a certain tolerance for error with the phased loci along one of the proband's gametes.
If one of a proband's gametes is completely phased the library is searched for candidate haplotypes which, when paired with the proband's completely phased gamete can explain the proband's genotype given a certain tolerance for error along the core.
If one candidate haplotype is found for the paternal gamete and one candidate haplotype is found for the maternal gamete these are paired and if the sum agrees with the genotype at all loci given a certain tolerance for error this pair of haplotypes is assumed to explain the phase of the unphased loci in the core.
If one candidate haplotype is found for the paternal gamete and more than one candidate haplotype is found for the maternal gamete the paternal candidate and each of the maternal haplotypes are paired and if only a single of these pairs agrees with the genotype at all loci given a certain tolerance for error this pair of haplotypes is assumed to explain the phase of the unphased loci in the core.
Although using the chi-square statistics (e.g., Figures 3 and 4) is helpful for quantifying the numerical error in the AFS, this measure of error is not informative enough to estimate the optimal numerical error given a certain level of statistical uncertainty when inferring demographic parameters.
To estimate correctly the optimal error given a certain level of statistical uncertainty, one should compare the location of the maximum-likelihood peaks in the numerical approximation with the true location of the peaks.
Constitutive, the link-performance model grants a possibility to determine the BLock Error Ratio (BLER) given a certain resource and power allocation as well as signal processing.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com