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The constraining of all bond lengths was performed with the LINCS algorithm [50].
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Our analysis of three population samples and C. remanei's sister species revealed ongoing natural selection that constrains evolution of all sequence domains within miRNA hairpins.
In silico simulations of single gene knock-out growth were carried out for each of the genes in the model by constraining the flux of all corresponding reactions to zero and then estimating the maximal biomass flux using FBA.
During the MD runs, the LINCS algorithm [44] was used in order to constrain the lengths of all bonds; the water molecules were constrained using the SETTLE algorithm [45].
These rules constrain the landscapes of all systems that contain diabolos.
This is achieved by projecting the window design to a subspace that constrains the sum of all rotated windows to be a constant function on the sphere.
The latter models incorporate the possibility of positive selection, while the former models constrain the evolution of all codons to be purifying (dN/dS<1) or nearly neutral (dN/dS≈1).
Heuristic search under the ML criterion resulted in a best unconstrained tree with a log likelihood of −5311.487 and a best tree constrained for monophyly of all clusters from the optimal clustering with a log likelihood of −5318.039.
The integration time step of the simulations was set to 2.0 fs, the SHAKE algorithm was used to constrain the lengths of all chemical bonds involving hydrogen atoms at their equilibrium values [48], and the water geometry was restrained rigid by using the SETTLE algorithm [49].
The SHAKE procedure was applied to constrain the lengths of all covalent bonds involving hydrogen atoms, with a time step of 2.0 fs.
Recognizing that the available data are insufficient to constrain the values of all the parameters in our model, we generated a collection of 3,758 parameter sets that also provided good fits to the data.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com