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Running was terminated when mice touched the electric shock grid at the back of the treadmill more than 10 times/min, and the total running distance was recorded.
In running MrBayes, the average standard deviation < 0.01 was reached before the running was terminated.
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After little more than a year at the club, McCarthy's contract, which still had 14 months left to run, was terminated for £1.5m, prompting West Ham vice-chairman Karren Brady to describe the player "as a big fat mistake" in her newspaper column.
The run was terminated at 6.723.300 generations, when the average standard deviation of split frequencies between the two runs was <0.01, and examination of the p-files in the program Tracer 1.4 (http://tree.bio.ed.ac.uk/software/tracer/) showed that the two runs had converged.
The cycling conditions for the TaqMan® assay were 94°C for 2 min followed by 40 cycles of 94°C for 15 s and 60°C for 1 min. The cycling conditions for the SYBR® Green assays were the same but the run was terminated by a melting curve analysis where the fluorescence was continually measured during a temperature increase from 60°C to 95°C.
The run was terminated when the dye front reached the lower end of the gel.
A repeat run was conducted 2 hours after the initial run if the previous run was terminated.
After 24 h, no further change could be detected in the scans, and the run was terminated.
Each run was terminated if either the mutant population went extinct (no invasion), reached a size of 500/(2 a) (invasion), or survived for more than 5 × 10 generations (invasion).
Five ML search replicates were run for each dataset using random starting trees, and up to five million generations were employed for each run unless the scoring topology lnL did not improve by ≥ 0.01 for 20 000 generations, in which case the run was terminated prematurely and the next bootstrap replicate was begun.
Within-season epidemic was simulated for 42 days; a simulated epidemic run was terminated when the pathogen population reached the fixation, i.e. fungal isolates present in the simulated population all have the same genotype in terms of their virulence trait.
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