Results for “bio-scraping”

Performs constraint-based metabolic modeling with COBRApy: FBA, FVA, gene knockouts, flux sampling, and SBML model handling for systems biology and metabolic engineering.

Discovers podcasts via the iTunes Search API, parses RSS feeds, downloads audio, transcribes with OpenAI Whisper, chunks transcripts, and upserts results into a database table.

Analyze recent screen activity via a local screenpipe daemon, detect repeated research workflows, and draft new skills or composition recipes for uncovered patterns.

Web Scraper IA — Expert en extraction web (Scrapy, BeautifulSoup, Playwright, anti-bot, proxy rotation, data extraction)

Autonomously optimize any Claude Code skill by running it repeatedly, scoring outputs against binary evals, mutating the prompt, and keeping improvements. Based on Karpathy's autoresearch methodology. Use when: optimize this skill, improve this skill, run autoresearch on, make this skill better, self-improve skill, benchmark skill, eval my skill, run evals on. Outputs: an improved SKILL.md, a results log, and a changelog of every mutation tried.

Build and debug Retrieval-Augmented Generation pipelines — chunking, embedding, retrieval, reranking

Builds a configurable scraping agent that collects data from APIs, HTML, or RSS, enriches it with Gemini AI scoring, and stores results in Notion, Google Sheets, Supabase, or local files.

Extract and preprocess tiles from whole-slide images (WSI) with histolab — OpenSlide-backed slide loading, tissue detection and masks, Random/Grid/Score tile extraction, and image/morphological filters for H&E preprocessing. Use when the user needs lightweight WSI slide preprocessing — building tile datasets for ML training, tissue segmentation, or quick tile-based inspection of histopathology slides. For end-to-end computational-pathology, deep-learning model training, nucleus segmentation, or multiplexed/spatial-proteomics (CODEX, Vectra) pipelines prefer alterlab-pathml instead. Part of the AlterLab Academic Skills suite.

Run computational biology tools for protein structure prediction, design, docking, and molecular dynamics on managed cloud GPUs via REST API or MCP server.

Perform fast genomic interval operations (overlap, nearest, merge, coverage, cluster, complement, subtract, count-overlaps), multi-format bioinformatics I/O, DataFusion SQL, and pileup on Polars DataFrames via the polars-bio library, serving as a scalable alternative to bioframe and bedtools.

Provides a standardized interface for ingesting raw data across domains such as genomics, network analysis, document review, and spatial mapping, converting it into semantic vectors for agent use.