Batch correction for single-cell RNA-seq (and other omics) with Harmony. Removes technical batch effects from PCA embeddings while preserving biological variation. Use after PCA, before UMAP/neighbors. Fast and scalable to millions of cells. Python (harmonypy, scanpy integration) and R (Seurat) APIs.
Benchling R&D platform Python SDK. CRUD operations on registry entities (DNA, RNA, proteins, custom entities), inventory management (containers, boxes, transfers), electronic lab notebook entries, workflow automation. Requires Benchling account and API key. For local sequence analysis use biopython; for chemical databases use pubchem.
Opentrons Protocol API v2 for OT-2 and Flex liquid handling robots. Write Python protocols for automated pipetting, serial dilutions, PCR setup, plate replication. Control hardware modules (thermocycler, heater-shaker, magnetic, temperature). For multi-vendor lab automation use pylabrobot.
Adaptyv Bio provides an API and Python SDK for ordering and managing cell-free protein expression and binding assay experiments. Use it to submit protein sequences for expression (scale 10–100 µg), characterize binding affinity (KD) against target proteins, track experiment status, and retrieve results — all programmatically without wet-lab setup. Designed for protein engineers, ML-guided directed evolution, and antibody/nanobody optimization workflows. Requires an Adaptyv Bio account and API key.
Process-based discrete-event simulation framework. Model systems with queues, shared resources, and time-based events: manufacturing lines, service operations, network traffic, logistics. Processes are Python generators that yield events. Resource types include capacity-limited (Resource, PriorityResource, PreemptiveResource), bulk material (Container), and object storage (Store, FilterStore). For continuous simulation use SciPy ODE solvers; for agent-based modeling use Mesa.
Structured ideation methods for scientific research: SCAMPER, Six Thinking Hats, Morphological Analysis, TRIZ, Biomimicry, and 4 more techniques. Decision framework for choosing methods by challenge type (stuck, improving existing, systematic exploration, contradiction resolution). Use when generating research ideas, exploring interdisciplinary connections, or challenging assumptions.
Query ChEMBL bioactive molecules and drug discovery data using the Python SDK. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki, EC50), find inhibitors for targets, perform SAR studies, and access drug mechanism/indication data for medicinal chemistry research.
Brand monitoring tool for tracking mentions across social media platforms. Monitor Reddit, Google News, YouTube, and DuckDuckGo for brand mentions. Includes sentiment analysis, trend tracking, crisis detection, and competitor comparison. No API key required for basic monitoring.
Set up competitor price tracking and monitoring workflows. Track price changes, detect promotions, analyze pricing patterns, and get alerts for competitive price movements.
Cross-border e-commerce expansion advisor. Scores target markets on 8 weighted dimensions (market size, ecommerce penetration, competition, regulatory complexity, logistics infrastructure, payment ecosystem, cultural distance, IP protection), compares 5 fulfillment models with cost and transit data, provides country-by-country tax/duty compliance guides (EU VAT/IOSS, UK VAT, US sales tax, CA GST, AU GST, JP consumption tax), maps local payment preferences by market, and builds a phased expansion roadmap. No API key required.
E-commerce growth strategy advisor. Diagnoses current business health using unit economics (CAC, LTV, AOV, contribution margin), identifies the highest-impact growth opportunities across 5 levers (traffic, conversion, AOV, retention, expansion), and builds a prioritized 90-day growth roadmap. Uses the Ansoff Matrix adapted for e-commerce to evaluate market penetration, channel expansion, product expansion, and new market entry. Includes multichannel readiness assessment (Amazon, Walmart, TikTok Shop, Etsy, DTC/Shopify/Shopify) and product line expansion analysis. No API key required. Use when: (1) planning next phase of e-commerce growth, (2) deciding whether to expand to new channels or products, (3) diagnosing why growth has stalled, (4) prioritizing what to fix or build next.
Full-stack e-commerce marketing strategy builder. Analyzes your product, market, and competitors, then builds a complete omnichannel marketing plan covering paid ads, SEO, email/SMS, content marketing, social media, influencer partnerships, and referral programs. Includes target audience persona, competitive landscape, channel prioritization with budget allocation, content direction, and a 90-day action plan. Works for any e-commerce platform — Shopify, Amazon, Etsy, WooCommerce, TikTok Shop, and more. No API key required.
Monitor social media mentions, trends, and competitor activity for e-commerce brands. Set up listening workflows across Reddit, TikTok, Instagram, Twitter/X, and YouTube.