Stars
A 124.6M LLM trained from scratch on 13B tokens on a single RTX 4090 — tokenizer, pretraining, post-training, evaluation, and reproducible inference.
TRAjectory-based Differential Expression analysis for SEQuencing data
🎨 Toolkit for generating publication-quality plots for Cell, Nature and Science journals
Artistic and nature-inspired colour palettes for R, on CRAN as 'ltc'. Curated for clarity and impact in scientific figures.
Fast and scalable inference for single-cell differential gene expression of multiple patients
Air-gapped, privacy-focused, open-source NotebookLM alternative. AI agent that researches, transforms, and edits your documents. Join our Discord: https://discord.gg/ejRNvftDp9
Omnigent is an open-source AI agent framework and meta-harness: orchestrate Claude Code, Codex, Cursor, Pi, and custom agents — swap harnesses without rewriting, enforce policies and sandboxing, an…
PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)
A lightweight alternative to OpenClaw that runs in containers for security. Connects to WhatsApp, Telegram, Slack, Discord, Gmail and other messaging apps,, has memory, scheduled jobs, and runs dir…
LLM-powered personalized daily lists of scientific papers
AI agents running research on single-GPU nanochat training automatically
Inkwell: Markdown to publication-quality PDF. Live preview, Pandoc + XeLaTeX compilation, runnable code blocks, and LaTeX template management for VS Code / Cursor.
A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
VSCode theme based off the easemate IDE and Jetbrains islands theme
PaperBanana: Automating Academic Illustration For AI Scientists
Spatial Transcriptomics Capture Location Deconvolution
AUCell: score single cells with gene regulatory networks
The AI that really does things. Any OS. Any Platform. The lobster way. 🦞
PEAK-QC: Periodicity Evaluation in ATAC-seq as Key aspect in Quality Control
Exploring multicellular coordination from single-cell gene expression / multi-omics using mutlilayer network representations