Sentence examples for build a distance matrix from inspiring English sources
It computes the shortest paths between all pairs of nodes to build a distance matrix and then applies the classical Multidimensional Scaling (MDS) to this matrix to retain the first two largest eigenvalue and eigenvector to a 2D relative map.
The pairwise Netdis values from Equation 3 are then used to build a distance matrix for all query networks.
We use a fast heuristic which proved effective in practice: build a distance matrix for pairs of taxa and use simple clustering to build the ordering.
To remove redundant motifs, each position frequency matrix was converted to a k-mer frequency vector that was then used to build a distance matrix by the Pearson Correlation distance.
The 'ape' package in the 'R' environment was used to build a distance matrix based on the presence of clusters (as determined by SGH Array, or WGS when array data was not available) using the binary setting [ 41].
For each alignment, we built a distance matrix correcting for multiple substitutions with the Kimura two-parameters model [ 56].
To evaluate the presence of conflicting signals in the data set, and especially in the rice lineage, we built a distance matrix (F84 model) from the concatenation of the individual filtered alignments of the 6,878 putative orthologs.
Builds a distance matrix from global pairwise alignment of both anchor and empirical sequences combined, using the same methodology as in building the reference topology earlier.
We used this matrix (+1 to control for multiple zeros) to make a distance matrix using Manhattan (city-block) distances.
For each cluster, the redundancy data on 15 genotypes were used to build a Euclidean distance matrix.
To inspect sample relations, variance-stabilizing transformed count data were used to build an Euclidean distance matrix, followed by hierarchical clustering analysis, as described elsewhere [ 16]. miRNA differential expression analysis was performed using Bioconductor's package DESeq [ 16].
