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To eliminate these systematic alignments and variations of size, we also employed a 3D constrained condition, in which the spheres were distributed in 3D space such that their centers were constrained to lie on the depicted object surface at randomly selected positions.
To eliminate these systematic alignments and variations of size, we also employed a 3D constrained condition, in which the spheres were distributed in 3D space such that their centers were constrained to lie on the depicted surface at randomly selected positions.
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The sensitivity of Zp to systematic alignment errors can be exploited to identify regions of potential misalignment.
In the spirit of classifying systematic alignment errors introduced by [48], we refer to this problem as gap dribble, since short alignments are dribbled along the large gap.
We show that current non-parametric covariation statistics are sensitive to sequence misalignments and that this sensitivity can be used to identify systematic alignment errors.
Furthermore, we show that new statistics <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0011082.e007.PNG" class= inline-graphic"/> and Zpx are relatively insensitive to systematic alignment errors, and are especially effective at identifying pairwise covarying residues.
Systematic alignment errors may be introduced by reads originating from repetitive regions.
An alternative strategy could be a more systematic alignment of columns with the same ocularity, as suggested by the stripy pattern in macaque monkeys.
The camera sensor was aligned to the stage so that the angle between their axis was less than 0.01 degrees, thus avoiding systematic image alignment errors.
These numbers suggest false-positive rates of 15%and4%4% respectively, mainly due to transcriptome assembly problems, SNPs, somatic mutations and systematic mis-alignments.
We have amended the text to the following: "This suggests false-positive rates of 15%and4%4% respectively, mainly due to transcriptome assembly problems, SNPs, somatic mutations and systematic mis-alignments.
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