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Genetic distance, in simple terms, is the number of alleles at which two individuals differ. For example, matches at 111/111 markers have a genetic distance of 0, while matches at 21/25 have a genetic distance of 4. These calculations can be performed at various levels of confidence.
This section focuses first on how we estimate distances, depending upon the level of interest, and then highlights some approaches for visualizing and gaining inferences from the distance matrix itself.
The distance matrix is widely used in the bioinformatics field, and it is present in several methods, algorithms and programs. Distance matrices are used to represent protein structures in a coordinate-independent manner, as well as the pairwise distances between two sequences in sequence space.
Overview. In practice, computing the Wasserstein distance between all pairwise gene distri- butions can be computationally expensive. When the cell graph is large, the time cost for finding the optimal transport solution increases exponentially.
24 sty 2014 · We analyze how different distances and clustering methods interact regarding their ability to cluster gene expression, i.e., microarray data. We study 15 distances along with four common clustering methods from the literature on a total of 52 gene expression microarray datasets.
24 maj 2017 · Metrics. Abstract. Studying isolation by distance can provide useful demographic information. To analyze isolation by distance from molecular data, one can use some kind of genetic distance...
11 gru 2023 · --distance is the primary interface to PLINK 1.9's IBS and Hamming distance calculation engine. Output formats By default, --distance causes a lower-triangular tab-delimited text file to be written to plink .dist , and a list of corresponding sample IDs to plink .dist.id .
