Sentence examples for using a distance matrix from inspiring English sources

Hierarchical cluster analysis was performed on all samples using a distance matrix representing differences in PhyloChip taxon intensities.

Neighbor-joining trees were obtained with MEGA v4 [18], using a distance matrix calculated using the Kimura 2 parameter model of sequence evolution.

Operational taxonomic units (OTUs) were determined by aligning 500 600bp of each forward read in ClustalX, and grouping into 99% similar OTUs using a distance matrix generated in PAUP4.b10 [91].

Clade distances were calculated using a distance matrix among populations based on geographic coordinates.

We estimated FST values using haplotype frequencies, using a distance matrix between haplotypes based on the Kimura's two-parameter model [ 66] and using a distance matrix between haplotypes based on Tamura-Nei distance [ 67].

Hierarchical clustering of the total gene expression was performed using a distance matrix to assess the relationship between the samples and identify clusters amongst the time points.

To gain insight into how N recognizes viral RNA specifically, we designed an algorithm that uses a distance matrix and multidimensional scaling to compare the predicted secondary structures of known N-binding RNAs, or aptamers, that were isolated and characterized in previous in vitro evolution experiment.

The servers implemented either a neighbour-joining method or the bottom-up clustering method developed by Saitou and Nei [ 61] and the algorithm used a distance matrix to specify the distance between each pair of taxa.

Ward's method was used as a clustering technique to identify the zones in data and square Euclidean distance was used as a distance matrix.

The normalized scores were used as a distance matrix and served as input for an agglomerative hierarchical clustering.

For similarity searches of 16S rRNA gene sequences, all sequences within each sample were aligned using NAST [55], a distance matrix calculated using the DNADIST tool of the PHYLIP package through the Greengenes website [51], and clustered to the 97% similarity level as described above.