Bioinformatics
Modular package for generation of sets of ranges representing the null hypothesis. These can take the form of bootstrapped ranges (bootRanges), or set of control ranges that are matched across one …
Python API for comprehensive GWAS analysis using GEMMA
Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
Immunogenetic Data Tools related to HLA, GLStrings, Linkage Disequilibrium
A fast multi-core implementation of HDBSCAN for low dimensional Euclidean spaces
Toolbox for molecular animations in Blender, powered by Geometry Nodes.
genetic variant expressions, annotation, and filtering for great good.
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
Cookiecutter profile for making a Snakemake-based bioinformatics tool, but without the fluff
Code and data used to create the JASPAR UCSC Genome Browser tracks data hub
Interactive multiscale visualization for structural variation in human genomes
📂 HLA allele frequencies in tab-delimited format, downloaded from AFND.
A Jupyter widget for comparing two embeddings with shared labels by their confusion, neighborhoods, and size.
TARDIS: Topological Algorithms for Robust DIscovery of Singularities
Visualize and interact with Protein Data Bank (pdb) and structural files in R and Shiny
Jupyter widget to interactively view molecular structures and trajectories