Using Dendritic Heat Maps to Simultaneously Display Genotype Divergence with Phenotype Divergence

Using Dendritic Heat Maps to Simultaneously Display Genotype Divergence with Phenotype Divergence

The advancement of techniques to visualize and analyze large-scale sequencing datasets is an area of active research and is rooted in traditional techniques such as heat maps and dendrograms. We introduce dendritic heat maps that display heat map results over aligned DNA sequence clusters for a range of clustering cutoffs. Dendritic heat maps aid in visualizing the effects of group differences ...

Genotype-Phenotype Maps

The current implementation of the Neo-Darwinian model of evolution typically assumes that the set of possible phenotypes is organized into a highly symmetric and regular space equipped at least with a notion of distance, for example, a Euclidean vector space. Recent computational work on the biophysical genotype-phenotype model defined by the folding of RNA sequences into secondary structures s...

Asymptotic Distribution of Divergence Measure with Applications

Dating divergence of Polystigma and other Sordariomycetes

Studies on the evolutionary history of ascomycetes in terms of time scale will help to understand historical patterns that shape their biodiversity. Until now most of dating studies of ascomycetes have focused on major events in fungal evolution but not on divergence events within smaller groups of fungi e.g. within Sordariomycetes. We used molecular dating to estimate the time of separation of...

Real Divergence-free Jacobian Maps Are Shear Maps *

We show that divergence-free jacobian maps, recently considered in [11], [14], are actually shear maps.