Variable expectations

Title Categories Description Reading Time
Two roads to AI’s future (top),Essays Superhuman oracles and social minds 14 min
Enabling AI in LNP engineering (top),cheminformatics,LNP Virtual spaces and chemical languages 14 min
Exploring perturbation data in drug discovery (top),dataviz,genomics Some trajectories of AI-guided exploration 5 min
Extracting important papers from literature LLM,LNP Sourcing literature with full control 18 min
In silico fragment synthesis with combinatorial chemistry cheminformatics,LNP Revisiting LNP libraries for rational design 6 min
Combinatorial chemistry and in silico decompositions cheminformatics,LNP Decomposition as inverted synthesis 9 min
Embedding too many chemicals to count cheminformatics,LNP Discrete combinatorics as continuous embeddings 4 min
Sourcing chemical structures for in silico discovery cheminformatics,LNP Getting ionizable lipid structures from online catalogs 11 min
Navigating vast chemical spaces without enumeration cheminformatics,LNP Synthons and how to express them 7 min
Screening too many chemicals to count cheminformatics,LNP Searching trillions of structures on a laptop 14 min
Decomposition and synthesis with a flexible reaction set cheminformatics,LNP Reaction sets for different in silico ultralarge spaces 9 min
Visualizing in silico chemical decompositions cheminformatics,dataviz,LNP Ways to view ultralarge chemical spaces 1 min
Making animations and gifs dataviz Stringing together plots into gifs 1 min
Color for an applied data scientist dataviz Perplexingly useful colormap tidbits 1 min
Lightweight, interactive QSAR importance plots dataviz,cheminformatics A self-contained visualization of atomic contributions to models 3 min
Interactive browser, part 2 dataviz,cheminformatics An interactively clustered heatmap 7 min
Building an interactive data browser dataviz,cheminformatics Lightweight, performant exploration of chemical space 9 min
Interactive browser, part 3 - subset selection and scaling dataviz,genomics Repurposing for single-cell data 10 min
Building graphs from gene sets dataviz,genomics Gene-gene graphs and the Gene Ontology 5 min
Looking up gene sets in databases dataviz,genomics Some wrapper code for gProfiler 0 min
Random projections and dimensionality reduction graphs,ML Efficient, general applied tools 9 min
Tree! I am no tree! I am an embedding! graphs,ML Hierarchies on data 8 min
From local change to global order graphs,ML Calculus on graphs as manifolds 17 min
Graph sparsification graphs,ML Removing edges while maintaining connectivity 13 min
Localized graph descriptions graphs,ML Learning an interpretable coordinate system for a dataset 4 min
Detecting motifs in networks graphs,ML Some linear algebra one-liners 4 min
Generating samples from kNN graphs graphs,ML For “stationary” signals 5 min
Graph-based semi-supervised prediction graphs,ML Harmonic analysis for learning on graphs 8 min
Constructing data-driven neighborhood graphs graphs,ML Building neighborhood graphs from datasets 12 min
Probability densities on embeddings graphs,genomics,statistics Tools for modeling distributions on data neighborhoods 8 min
SVD-based imputation methods graphs,statistics Using the SVD to perform ultra-efficient imputation 1 min
Laplacian regularization and trend filtering graphs,statistics Using graphs to regularize learning 8 min
Measuring association between variables statistics A few new coefficients 12 min
The SVD and friends statistics,ML Breaking down a (sparse) matrix quickly 11 min
Foundations of concentration and entropy statmech Where entropy comes from 10 min
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