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This can easily be verified by the variance of the alignment depth or by viewing the distribution of the sampled depth directly.
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However, we have carried out a co-variance analysis of the alignment used (Supplementary Figure S3 at http://www.BiochemJ.org/bj/429/bj4290243add.htm) which indicates that co-evolution between the positions included in our library is not significant.
Inter-population homoeologue alignment using allele size (Table 3) was, therefore, derived from identifying the homoeologue pairing that maximised the number of joining loci in agreement with the alignment (matches) while minimising the number of joining loci at variance with the alignment (mismatches).
Aiming at the determination of the sampling variance of the distance values, 1000 bootstrap resampling of the alignment columns was exerted.
The KNN algorithm is less robust because it computes point-wise similarities between time series without any temporal alignment; as the variance of the temporal shifts increases, we observe a significant drop in accuracy.
Another recently introduced parameter for the quality assessment of multiple read alignments is the variance of the ratio of reads that support the alternate allele at heterozygous positions [ 14].
Because the rhesus and cynomolgus genomes are very similar, we wanted to minimize non-orthologous alignments, which inflate the average and variance of the nucleotide divergence between them.
The asymptotic variance of the estimated variance is derived.
I was struck by the beauty and variance of the samples and the stories they held.
We find significant differences between these trees in 124 (43%) of the alignments, suggesting that the lack of similarity is not due to sampling variance.
eMFE of the alignments.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com