Have long-read data and want to know what you've really sequenced, and how much of it? Reliable taxonomic labels are often scarce if the target is from a less well-explored group. Fortunately, 2D embeddings from a VAE can tease apart different organisms in read sets: www.biorxiv.org/content/10.1...
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
If you have thoughts on how you would like ModelFinder & PartitionFinder to work in IQ-TREE, I am interested in hearing them. We are re-building this now. Particularly interested in pain points for users! Please repost if you have phylo followers...
To help SMTPB grow & build a community in modeling, theory, simulations, & data analysis in population biology (widely interpreted, incl. ecology, evolution, epidemiology, systematics...), please share this widely, join the listserv (email lbond@stanford.edu), & consider membership (smtpb.org)!
New in Nature - a phylogeny of over 10,000 species (all families, 58% of genera) inferred using Angiosperms353! We've been calling this the "Big Tree" paper for years and I'm glad to see it in print - fantastic work by the Kew PAFTOL team and many others! www.nature.com/articles/s41...
Phylogenomic analysis of 7,923 angiosperm species using a standardized set of 353 nuclear genes produced an angiosperm tree of life dated with 200 fossil calibrations, providing key insights into...
Is there any clear example of any type of speciation?
This is something I have been waiting for for a while. A completely novel approach for TE detection. Brilliant!
Identification of transposable element families from pangenome polymorphisms https://www.biorxiv.org/content/10.1101/2024.04.05.588311v1
Background: Transposable Elements (TEs) are fragments of DNA, typically a few hundred base pairs up
I (think) you assumed right about the etymology. Thanks for the feedback, I would have never guessed that's something readers would be interested in...