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Again, only loci present in at least 80% of individuals were retained.
785 individuals were retained for analysis after exclusion based on strict quality-control criteria; 1) genotyping call rate less than 95%, 2) autosomal heterozygosity less than 27% or more than 31%, 3) being related or identical to other individuals in the sample and 4) discordance of observed gender and estimated gender.
By applying standard quality control filters, only 480 individuals were retained for further analysis.
Following this QC step, 4304 genotyped individuals were retained for 1445 pedigrees.
The tags with 10 or more reads across all individuals were retained for pairwise alignment.
After producing the F3 generation, 94 F2 individuals were retained and used for linkage mapping and SNP validation.
Similar(49)
A small quantity of Sardinops (∼500 individuals) was retained in the net and the process of tightly bunting the net (aggregating the fish at high densities) and rolling excess fish over the headline of the purse seine net was simulated; these fish were similarly transferred to an onboard tank.
Thus, in each subpopulation, new individuals are created while multiple old elite individuals are retained and population sizes are kept constant.
This enables, in the case of the occurrence method, the minimization of the extreme values effect and means that only the relevant measurements calculated for the selected individuals are retained.
We excluded the observations of individuals who participated in more than one round and the first observation for repeated individuals was retained in the final dataset.
Similarly to the FULL representation, the CM representation does not preserve the topology of the empirical contact network, but the more coarse-grained contact structure between classes of individuals is retained by associating pairs of individuals with weights that depend on their classes.
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