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We performed the invasion analysis as follows: we computed the Jacobian of model (2) and evaluated it at the resistance-only steady state for a given set of parameters including β y.
We estimated whether the genotypes obtained from iPLEX supported the TDT results obtained from the Affymetrix arrays as follows: we computed error rates from the Affymetrix arrays for each SNP, assuming that the iPLEX genotypes were the truth.
To investigate the results at the simple locus level, we proceeded as follows: we computed the averages of each locus' methylation values across all samples for tissue and stool in each category of normal (N) and cancer (Ca) individuals; for blood, we retained the value provided by Illumina for the single pooled sample assayed.
Filtering of clusters in C h i t was performed using the above topological and similarity measures as follows: We computed all topological and similarity measures for each subnetwork in C a l l, and performed a Wilcoxon test to assess differences of means of significantly enriched subnetworks in C h i t with randomly selected clusters in C a l l ∖ C h i t of the same size.
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In what follows, we compute the resistance distance between u and v in (G^).
From Eq (2), we see that Hnoise is proportional to the noise level σ, so in what follows we compute the noise entropy in these units.
The overall idea is as follows: We compute Q (s ) in 𝒪(n ).
However, for all that follows, we compute β statistics only for those contigs with at least 6× average coverage to avoid biases caused by contigs that represent diverse sequences but are expressed at low levels.
First, in what follows, we compute the error as compared to the advected initial value which lies in the space of piecewise linear functions (and not to the analytic initial value).
This ranking is computed as follows: we first compute the median rating for each system on each question and then rank systems for each question by that median.
Finally, we calculated the operon conservation index for A (OCIA) as follows: We also computed OCI values for subsets of pairs of genes according to the variables of interest such as essentiality, gene expression, and protein concentration (supplementary table S1, Supplementary Material online).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com