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Exact(2)
The search methods return similar numbers of false positives using nominal E-value cutoffs of 0.3 for BLASTP, 0.05 for CS-BLAST, 0.015 for PSI-BLAST, and 0.01 for DELTA-BLAST.
Because the E-values reported by different methods are not equally accurate, we identified nominal E-value thresholds at which the various methods return similar numbers of false positives.
Similar(58)
The two methods were expected to return similar, though not identical, results.
All methods returned trees with similar topology and approximate bootstrap values; therefore only the neighbor-joining tree is presented.
Furthermore, BedTool methods return new BedTool instances, allowing users to chain many operations together in a fashion similar to the UNIX command line.
All its methods return functions, while in an imperative implementation using mutable state their return type would be Unit (similar to void in Java).
These methods return two elements.
All methods returned the same phylogeny with similar assessment of uncertainty by bootstrap or posterior probability.
Here, e.g. genes 7 and 8 were each measured by two probe sets showing opposite regulation with unequal probe set p-values, and both spots show similar intensity levels; for these genes Stouffer's method returns p-values similar to those determined based on mean expression values.
We had a similar problem with the 3G dataset which when analysed in BEAST, without the constraints described in the methods, returned dates that were almost three fold older than those returned by the WG dataset.
Both methods returned nearly identical topologies.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com