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Starred repositories
Collects software dedicated to predicting specific properties of peptides
Python package to run DefensePredictor, a model that identifies proteins involved in anti-phage defense
Predict AMPs in (meta)genomes and peptides
A listing of software, tools and databases useful for virome analysis
Multi-level network clustering based on the Map Equation
Full-Length Alternative Isoform analysis of RNA
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HydrAMP: a deep generative model for antimicrobial peptide discovery
Large Language Models in Protein: A Comprehensive Survey
Detect S. aureus RBPs and determine binding specificity.
A foundation model approach to guide antimicrobial peptide design in the era of artificial intelligence driven scientific discovery
ProtSpace is program that helps in visualizing and investigating our protein embedding space.
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
RBPseg: A Tool for Tail Fiber Structure Prediction
A Jupyter widget using sigma.js to render interactive networks.
Download viral genomes by connecting to the latest ICTV Virus Metadata Resource (VMR)
Croissant is a high-level format for machine learning datasets that brings together four rich layers.
Use LLMs to dig out what you care about from massive amounts of information and a variety of sources daily.
Integrate the DeepSeek API into popular softwares
A Model Context Protocol server for converting almost anything to Markdown
MCP Deep Research Server using Gemini creating a Research AI Agent
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Genome modeling and design across all domains of life