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The converted models can be further processed by any tool complying with SBML or APNN, e.g. using Snoopy [31], which supports both formats and allows for graphical visualization of the translation results.
MapChart 2.2 software was used for graphical visualization of the linkage groups [ 28].
An R-script was written for graphical visualization of linkage groups representing 29 chromosomes in Atlantic salmon following the nomenclature of Phillips et al., [ 20].
Sequence logos inspired development of several other tools that use principles of Shannon's information theory (Shannon, 1948) for graphical visualization of conserved biological elements.
To ensure that the MCMC analyses had run long enough such that tree topologies were sampled in proportion to their true posterior probability distribution, we used AWTY [ 45, 46] for graphical visualization of MCMC convergence.
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All simulated SNPs were scored using BFs for the BBGP, and P-values for the CMH test (e.g. see Supplementary Fig. S1 for a graphical visualization of the scores).
MapChart v2.2 software (Voorrips 2002) was used for the graphical visualization of the linkage groups.
Sliding-window analyses, which are convenient for graphical visualization, were used with a window size of 600 bp and a step size of 5 bp following Roe and Sperling [ 28].
Median values with interquartile range were used for graphical visualization.
For graphical visualization Tukey boxplots were depicted with whiskers with maximum 1.5 interquartile range (ICR).
The MySQL database was used for graphical visualization and data filtering.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com