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We wrote Perl scripts to evaluate θ for single/dual applications method described in the main text.
We also investigated the number of mCs per fragment (approximated by the number of mCs per read) using in-house Python scripts, to evaluate MBD2-capture efficiency.
Additionally, we have developed MATLAB scripts to evaluate the model's predictive accuracy and to demonstrate basic model applications such as simulating aerobic and anaerobic growth.
In addition to the GEM and GENRE SBML files, we have developed MATLAB scripts to evaluate the model's predictive accuracy and to demonstrate basic model applications, such as simulating aerobic and anaerobic metabolism with Yeast 5.
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Each repeat was subsequently screened using RepCheck (an original Python script) to evaluate the probability that it would occur more than once in a given intron.
New Perl scripts were developed to evaluate and refine SNP populations and to identify useable SNPs for subsequent mapping.
A suite of custom scripts was designed to evaluate the quality of the resultant RNA-Seq data.
Without a list of qualities to evaluate crime scripts, there is a risk that scripts are always considered good enough.
Intersection files were then parsed using a custom perl script to (1) evaluate ME content and (2) determine the enrichment (or depletion) of each ME family relative to its genomic abundance.
The author presents a list of twelve quality criteria that could be used to evaluate crime scripts.
Furthermore, the O-FIm framework is a free tool that is available and can be used to configure graphic oracles, as well as serve as API for implementing test scripts that use such oracles to evaluate systems with graphical outputs.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com