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Starred repositories
Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
Userscript to filter, search, organize, or delete your Google Photos library
An AI-powered file management tool that ensures privacy by organizing local texts, images. Using Llama3.2 3B and Llava v1.6 models with the Nexa SDK, it intuitively scans, restructures, and organiz…
Letta (fka MemGPT) is a framework for creating stateful LLM services.
Official implementation of Phi-Mamba. A MOHAWK-distilled model (Transformers to SSMs: Distilling Quadratic Knowledge to Subquadratic Models)
An open-source RAG-based tool for chatting with your documents.
Microbial community-scale metabolic modeling predicts personalized short-chain-fatty-acid production profiles in the human gut
ATLAS - Three commands to start analyzing your metagenome data
An AI agent that writes (actually useful) code for you
Network construction, analysis, and comparison for microbial compositional data
🤖🌊 aiFlows: The building blocks of your collaborative AI
Calculate sensible core gene thresholds for metagenomic data
REALPHY - The Reference sequence Alignment based Phylogeny builder is a free online pipeline that can infer phylogenetic trees from whole genome sequence data. The user only has to provide a small …
A workflow and scripts for large-scale antiSMASH analyses
⚡️ A semantic line breaker that truly breaks lines semantically. Powered by Transformers.
Repository for Protein-Vec, a protein embedding mixture of experts model
Pandas DataFrames as Interactive DataTables
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
🦠 A comprehensive R package for deep mining microbiome
R package for collaborative writing and editing of R Markdown (or Sweave) documents in Google Docs.
Scripts for fine-tuning Meta Llama with composable FSDP & PEFT methods to cover single/multi-node GPUs. Supports default & custom datasets for applications such as summarization and Q&A. Supporting…
👓 Opinionated Markdown formatter, featuring semantic line breaks
