Overall, the mean recombination rate for most of the populations is similar to that found forArabidopsis thalianausing LDhat, when using θ = 0.1 [19] (Table1). The LDhat estimates using θ = 0.001 were slightly higher than the estimates using θ = 0.1 for each population. We...
The Dynamic Imaging of Coherent Sources (DICS) beamforming and applying the Density-Based Spatial Clustering of Applications with Noise (DBSCAN) algorithm on the results of the DICS beamforming, in order to localize the generators of the activity of the three frequency bands of interest (TBA, AB...
Clustering analysis using Lloyd’s algorithm was done by MATLAB built-in function (all analyses were done using MATLAB 2020b). All published experimental bond lifetime vs force data were measured at room temperature as reported in refs. 2,3,4,6,8,10,13,25,26 and the TCR–pMHC constructs...
the reciprocal dissociation rate should be equal to the average bond lifetime. Regardless of the bond type, the reciprocal zero-force off-rate controls they-intercept of the bond lifetime vs force curves. We plotted the theoretical bond lifetime (normalized by its zero-force value)\({k}_{0...
subdivision was based on ConnMatTools (a) and YASS (b) algorithms considering PLD10. For genetic connectivity (c), the best number of populations (k) was determined by sNMF and PCA. The pie charts show the mean admixture proportions in each site considering the selected k for each species...
(3) HEI10 intensity trace data (at each point using the average over the spherical region of radius 0.2 µm) was normalized by subtraction of the mean and division by the standard deviation of the HEI10 intensities along the trace. (Note that subtraction of the median, as used in ...
The SOM is a competitive learning algorithm that tries to find a low-dimensional representation of the data in such a way that the topological ordering properties of the original data are preserved. These two models are analyzed in Supplementary Information Sect. 5, where both models are compared...
The mean clustering coefficient, a measure of the extent to which nodes tend to cluster together, also depends on these parameters, but not monotonically; high levels of clustering were observed in simulations with low or high pr, but not at inter- mediate levels (Fig. 2). We also test ...
their chromosomal structures are highly similar44,45. First, we compared theSalix purpurea v5.1genome with thePopulus trichocarpa v3.1genome, and the BLASTN algorithm was applied for analysis with an E value cutoff of 10-10. Then, we used the Entrez ID of homologousPopulus trichocarpagenes for...
mean phylogenetic distance (MPD) and mean nearest taxon distance (MNTD). These tests assess the degree of phylogenetic clustering within each sample (host) relative to a permuted null model. Assuming phylogenetic niche conservatism (i.e., closely related taxa overlap along niche axes), then host...