Sentence examples for simulated alignment from inspiring English sources

To check whether the alignment process itself makes a difference, two additional datasets were made by recovering the sequences from the simulated alignment and aligning them using the same procedure as for the biological sequences.

We used simulated alignment data to guide the design of our ncRNA discovery pipeline and estimate the corresponding false-positive rate.

C code implementing Markov chain Monte Carlo sampling of the posterior distribution analyzes each simulated alignment.

A histogram of the ORF disruptions per simulated alignment was created in PASW statistics 18.

In each simulated alignment, we randomly selected one individual sequence per species as reference sequence and treated the remaining sequences (of that species) as query sequences.

We repeated this procedure 100 times and reconstructed ancestral G + C contents with the non-homogeneous GG model on each concatenated simulated alignment.

The sequences for the hypothetical target species, Primate and Rodent, were removed from the simulated alignments and the rest of the aligned sequences were used as the reference alignment (RA).

The large size of these simulated alignments makes them a stringent test of FastTree's heuristics.

As a result, the simulated alignments corresponded to mosaic DNA sequences formed by distinct non-recombinant fragments.

We evaluated our method initially by analyzing sets of simulated alignments in the presence and absence of recombination.

To measure the quality of the resulting trees, we measured the topological accuracy on simulated alignments and the likelihood on genuine biological alignments.