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The code and user-guide for the visualization methods and calculating the HADB thresholds are posted on GitHub: https://github.com/wassermanlab/TFBS_Visualization/archive/master.zip.
By making use of the measures of order described in the 'Measure of long-range order' section in 'Materials and methods' and calculating the similarity of each activity pattern either to an FCC or to an HCP, we can assess the presence within a population of mEC units of the different asymptotic arrangements.
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The aim is to assess the difference between the methods and calculate the performance among main indicators, considering the same decision variables and constraints.
We determined the accuracy, sensitivity and specificity for both reconstruction methods and calculated optimal cut-off values to distinguish benign from malignant nodes.
We compared the fever detection rate of both Methods and calculated the difference in timing between both techniques.
To determine the degree of concordance between tag profiling and microarray analysis, we intersected lists of DEGs obtained with both methods and calculated confirmation percentages as above.
We separate these pauses from active translation bursts using a velocity threshold (see 'Materials and methods'), and calculate the 'pause-free' velocity of the ribosome.
Tumor volume as measured by different radiological methods and calculated as a square or bullet may lead to overestimations of tumor volume.
In this work, we constructed a human co-expression network of 20280 genes (see Methods) and calculated the number of co-expressed neighbours of each gene.
We have explored the independence of these methods and calculated the combined LR of each two methods, but the criterion of independence between two methods is hard to be fixed (data not shown).
The protein content was determined by analyzing nitrogen using the macro Kjeldahl method and calculating protein as N × 6.38.
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