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The LJ and Coulomb cutoff were set to be 10 Å and 9.5 Å, respectively.
The quality of integration accuracy and orbital cutoff were set at fine which approximately ~ 0.1 eV/atom.
For mRNA data, one stringent and one relaxed cutoff were set.
The k-mer, expected coverage, and coverage cutoff were set to 79, 4,000, and 100, respectively.
We are aware of this limitation and all transcripts whose mean posterior FPKM (which we convert to TPM units) fell below our cutoff were set to zero.
For example, with perfect statistics, if one were performing 1000 tests, one would expect to find one false positive if the E-value cutoff were set to 10-3. Figure 1 shows that TBLASTN with composition based statistics produces E-values that are somewhat conservative.
Similar(54)
Cap3 default settings were used except the overlap percent identity cutoff was set at 95%.
The cutoff is set very coarsely by switches [17:15].
The kinetic energy cutoff was set to 600 eV.
The plane-wave energy cutoff is set at 520 eV.
The e-value threshold cutoff was set to 0.005.
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