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After removing these repeated discrepancies, we detected 69 sites that conflicted between overlapping reads from the same clone, out of the overall 7,555 SNPs detected with probability score PSNP ≥ 0.10.
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Repeated discrepancy between what students perceive that they need to know [for examination purposes] and the stated course objectives can potentially lead to a 'local culture' whereby a hidden curriculum is created.
Quality control included procedures for duplicates and repeating discrepancies.
For quality control, 20% of the samples were randomly repeated; no discrepancies were observed.
9 This process will be repeated and discrepancies discussed among reviewers until a κ statistic considered as 'good' using Altman's criteria (>0.60) is achieved.
To evaluate the impact of these discrepancies, we repeated analyses after excluding these 334 women.
The maximum volumetric discrepancy between repeated intra-observer measurements for the whole tooth was 17.76 mm3.
Visualizing the maximum volumetric discrepancy between repeated intra-observer measurements for the whole tooth of 17.76 mm3 is displayed visually in Figure 7.
Therefore to try and understand this discrepancy we repeated the same experiments in MDCK cells (see Supplementary Figure S1 available at http://www.BiochemJ.org/bj/425/bj4250341add.htm).htm
We were originally concerned that a switching in samples was the cause of the discrepancy, but repeated genotyping and re-examination of the Sequenome iPLEX versus the sequencing data suggested that when sequence coverage was relatively low, our GATK pipeline defaulted to the genotype of the provided reference genome resulting in erroneous SNPs calls across isolates in the same time course.
This process was then repeated until there were no discrepancies between the different maps.
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