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For individuals assigned as parental pipiens, the average proportion of assignment into a different class (i.e. molestus and/or hybrid) was 0.144 for Tq = 0.70 and 0.218 for Tq = 0.50.
Regarding the second, the expected proportion of assignment errors was higher for offspring produced from stocked parents.
The proportion of assignment for isotigs is slightly higher than that of other de novo transcriptomes (range 23% - 35%), possibly because our isotigs are longer than the contigs used for annotation in other transcriptome annotations (1,248 bp vs 197 to 871 bp) [ 4- 8, 34].
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Under the biological process domain, 71 071 assignments were made, with a large proportion of assignments falling into the categories metabolic process (31.07%) and cellular process (29.94%).
However, the precision for k=20 and k=21 is about 15% lower than for k=31, which implies that a large proportion of assignments may be incorrect.
Under the biological process ontology, 555 assignments were made with a large proportion of assignments fell into metabolic process and cellular process (such as secretory pathway, transcription and translation) categories.
Especially, the proportion of assignments into the first temporal group (prior to 1920) was low (5.4% - 7.9%) among the individuals of the subsequent groups indicating relatively large genetic changes between the first and following time periods.
The up test will answer the first question whether the proportion of assignments at a node as a fraction of its parent is significantly different between the two datasets.
Although SPANNER had greatly increased taxonomic precision relative to LCA, SPANNER had a higher proportion of assignments to taxonomic groups that are not expected to be present in the KB-1 metagenome (labeled as 'other' in Fig. 5).
Thus, more realistic means of assessing the significance of the observed value are provided by considering the position of this value within the range of potential values in combination with the extension of this range and the proportion of assignments yielding equal or more extreme values of the descriptor than the observed value.
A proper evaluation of the quality of exposure assignment requires insight in the proportion of the assignment unit time period combinations used for assignment for which no or little exposure measurements were available and exposure levels had to be inferred.
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