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With a user-specified threshold of T = 2 for the first iteration step, the threshold value remains - log2 (0.5) in all subsequent steps, and with a chosen threshold value of T = 1, the value for the subsequent iteration steps is set to - log2 (0.75).
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The maximum number of Monte Carlo steps was set to 5000.
During the simulations, the time steps were set to 1 × 107, with a fixed time step of 1 fs.
Δt, the time step of FDTD, equals 16.667 ps, and the total computation time steps are set to 11,070.
The amount of movement between steps was set at 1 μm (the speed of the motorized stage was set at 1 μm/s).
For application of the IZZI-Thellier method, temperature steps were set to be every 50 °C between room temperature and 500 °C and every 35 °C between 500 and 600 °C.
The gradient elution steps were set as follows: 0 25 min, 30% methanol, 70% phosphoric acid at a flow rate of 0.65 mL/min.
Camera wells were not binned, yielding a pixel size of 0.07 µm in x and y. z steps were set to 0.07 µm, yielding cubic voxels.
Both pre- and post-process minimization steps were set as 100 and 50, respectively.
Incubation volumes for all ISH steps were set to 250 μl.
Annealing temperature increment steps were set automatically by iCycler software 3.1 (BioRad).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com