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Mean texture depths (MTDs) of each sample were computed via sand patch and outflow meter tests according to ASTM E 965-12 ASTM ETM E 2380-12, respectively.
The feature vectors (Table 1) for each sample were computed and are listed in Table 2.
Posterior conditional probabilities of the component membership for each sample were computed using the fitted parameters, and a threshold of ≥0.5 was used to classify a sample as having positive expression of the receptor.
Reads per bin (RPB i) for each sample were computed and the CN ratio (CNR i) for each bin was calculated as CNR i = RPB i/Median RPB), where i stands for individual bins.
The copy number of each putative gene was estimated by absolute quantification method and Ct values of the amplified target genomic DNA fragments in each sample were computed by the SDS program, using default parameters.
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The cumulative volume percentages from 0.04 to 74 μm (i.e., the inspirable particle range) for each sample are computed and plotted in Fig. 7.
The OTU richness rarefaction curve of each sample was computed using a self-written function in R (Supplementary Data S2).
Using gene set enrichment analysis, each sample was computed a pathway aberration profile that reflected its molecular state.
RPKM (reads per kilobase per million) for each sample was computed as the number of reads which map per kilobase of exon model per million mapped reads for each gene.
Given the genotype calls produced by ALCHEMY, the heterozygosities for each sample are computed (H obs ) and compared with the heterozygosity expected (H exp ) given the allele frequency at each SNP (estimated from the current genotype calls) assuming HWE.
Next, the eigenvectors u iw of the scatter matrices of each class sample were computed using the efficient technique proposed in [ 15], by first solving the eigenvalue problem: (3) where λ jω was the j th eigenvalue, and v jω is the j th eigenvector of matrix.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com