tools
Posts tagged “tools”.
Run Claude Code with Ollama: a local LLM on macOS and Linux
Ollama serves Anthropic's Messages API since version 0.14, so Claude Code connects to it directly. Setup on macOS and Linux, the context-length trap, model choice, and what does not work.
Run OpenAI Codex CLI with a local model via LM Studio or Ollama
Codex CLI has a built-in local mode. One flag runs it against LM Studio or Ollama; a profile in config.toml makes the choice permanent. Setup, models, context length, and the Responses-API caveat.
Run Claude Code with LM Studio: a local LLM on Apple Silicon
Connect Claude Code to LM Studio's Anthropic-compatible endpoint and run a local model on Apple Silicon: setup, model choice, context length, and the errors you will actually meet.
Automated lineage designation from viral genomic data
This study describes an automated framework for lineage designation from phylogenetic and genomic data, designed to scale to very large viral datasets while remaining consistent and interpretable.
SHAPE-directed RNA folding with ViennaRNA: reactivities as soft constraints
This paper shows how SHAPE-guided RNA folding is implemented in the ViennaRNA Package, comparing three widely used strategies for turning nucleotide reactivities into soft constraints that improve thermodynamic...