The quartet distance counts the four-leaf subsets on which two binary phylogenetic trees display different topologies. We prove that its maximum over trees on $n$ leaves is $(2/3+o(1))\binom{n}{4}$, r...

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fastQpick is a command-line tool and Python library for sampling FASTQ reads with replacement. Sampling with replacement turns a single FASTQ file into an arbitrary number of bootstrap replicates, whi...

We’ve documented more than 100 instances of apparent data manipulation in Thermo’s catalog

Nature Methods - Package selection and versioning matter

Arc Institute’s “MULTI-evolve” learns a classical additive model, not epistasis.

The philosopher Felix Hausdorff, famous for his foundational philosophical work Das Chaos in kosmischer Auslese  (Chaos in Cosmic Selection) in which he rejects metaphysics, also did mathematics as…

Principles for responsible AI-assisted rewriting of bioinformatics tools.

Repository for edgePython which is a Python implementation of the Bioconductor edgeR package for differential analysis of genomics count data. - pachterlab/edgePython

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edgePython is a Python implementation of the Bioconductor edgeR package for differential analysis of genomics count data. It also includes a new single-cell differential expression method that exte...

ALT: patrick star from spongebob squarepants is smiling with his hands folded

Scott Aaronson’s Brief Foreword: Harvey Lederman is a distinguished analytic philosopher who moved from Princeton to UT Austin a few years ago. Since his arrival, he’s become one of my …

Evolutionary changes to gene expression are understood to be a major driver of phenotypic divergence between species. Researchers have investigated the drivers of this divergence by fitting evolutiona...