Processing
Data transformation and parsing
deepchem
by K-Dense-AI
Molecular ML with diverse featurizers and pre-built datasets. Use for property prediction (ADMET, toxicity) with traditional ML or GNNs when you want extensive featurization options and MoleculeNet benchmarks. Best for quick experiments with pre-trained models, diverse molecular representations. For graph-first PyTorch workflows use torchdrug; for benchmark datasets use pytdc.
arboreto
by K-Dense-AI
Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.
nhl-data
by machina-sports
NHL data via ESPN public endpoints — scores, standings, rosters, schedules, game summaries, play-by-play, injuries, transactions, futures, team/player stats, leaders, and news. Zero config, no API keys. Use when: user asks about NHL scores, standings, team rosters, schedules, game stats, box scores, play-by-play, injuries, transactions, betting futures, team/player statistics, or NHL news. Don't use when: user asks about other hockey leagues (AHL, KHL, college hockey), or other sports.
apktool
by BrownFineSecurity
Android APK unpacking and resource extraction tool for reverse engineering. Use when you need to decode APK files, extract resources, examine AndroidManifest.xml, analyze smali code, or repackage modified APKs.
logicmso
by BrownFineSecurity
Analyze digital and analog captures from Saleae Logic MSO devices. Decode protocols like UART, SPI, I2C from exported binary files. Use when analyzing logic analyzer captures for CTF challenges, hardware reverse engineering, or protocol decoding.
datamol
by K-Dense-AI
Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery including SMILES parsing, standardization, descriptors, fingerprints, clustering, 3D conformers, parallel processing. Returns native rdkit.Chem.Mol objects. For advanced control or custom parameters, use rdkit directly.
bindingdb-database
by K-Dense-AI
Query BindingDB for measured drug-target binding affinities (Ki, Kd, IC50, EC50). Search by target (UniProt ID), compound (SMILES/name), or pathogen. Essential for drug discovery, lead optimization, polypharmacology analysis, and structure-activity relationship (SAR) studies.
vibe-check
by VibiumDev
Browser automation for AI agents. Use when the user needs to navigate websites, read page content, fill forms, click elements, take screenshots, or manage browser tabs.
bio-atac-seq-atac-peak-calling
by GPTomics
Call accessible chromatin regions from ATAC-seq data using MACS3 with ATAC-specific parameters. Use when identifying open chromatin regions from aligned ATAC-seq BAM files, different from ChIP-seq peak calling.
giving-presentations
by RefoundAI
Help users create and deliver compelling presentations. Use when someone is preparing a talk, building a slide deck, dealing with presentation anxiety, practicing for a keynote, or asking how to be more engaging when presenting.
bio-sam-bam-basics
by GPTomics
View, convert, and understand SAM/BAM/CRAM alignment files using samtools and pysam. Use when inspecting alignments, converting between formats, or understanding alignment file structure.
bio-causal-genomics-pleiotropy-detection
by GPTomics
Detect and correct for horizontal pleiotropy in Mendelian randomization analyses using MR-PRESSO for outlier removal, MR-Egger regression for directional pleiotropy, and Steiger filtering for variant directionality. Use when validating MR results, detecting pleiotropic instruments, or running sensitivity analyses for causal inference.
drizzle-orm
by EpicenterHQ
Drizzle ORM patterns for type branding and custom types. Use when working with Drizzle column definitions, branded types, or custom type conversions.
playwright-debug
by voicetreelab
This skill should be used when the user asks to "debug the electron app", "connect playwright to VoiceTree", "take screenshots of the running app", "interact with the live UI", "inspect the running application", or "test UI elements live". Provides step-by-step instructions for connecting Playwright MCP to a running Electron app for live debugging and automation.
hugging-face-trackio
by huggingface
Track and visualize ML training experiments with Trackio. Use when logging metrics during training (Python API) or retrieving/analyzing logged metrics (CLI). Supports real-time dashboard visualization, HF Space syncing, and JSON output for automation.
react-effects
by coder
Guidelines for when to use (and avoid) useEffect in React components
analytics-engineer
by borghei
Expert analytics engineering covering data modeling, dbt development, data transformation, and semantic layer management.
measuring-product-market-fit
by RefoundAI
Help users assess and achieve product-market fit. Use when someone is trying to determine if they have PMF, measuring user engagement and retention, running the Sean Ellis survey, or figuring out if they should scale or keep iterating.
clay-multi-env-setup
by Dicklesworthstone
Configure Clay across development, staging, and production environments. Use when setting up multi-environment deployments, configuring per-environment secrets, or implementing environment-specific Clay configurations. Trigger with phrases like "clay environments", "clay staging", "clay dev prod", "clay environment setup", "clay config by env".
bio-chipseq-differential-binding
by GPTomics
Differential binding analysis using DiffBind. Compare ChIP-seq peaks between conditions with statistical rigor. Requires replicate samples. Outputs differentially bound regions with fold changes and p-values. Use when comparing ChIP-seq binding between conditions.
rust-learner
by actionbook
"Use when asking about Rust versions or crate info. Keywords: latest version, what's new, changelog, Rust 1.x, Rust release, stable, nightly, crate info, crates.io, lib.rs, docs.rs, API documentation, crate features, dependencies, which crate, what version, Rust edition, edition 2021, edition 2024, cargo add, cargo update, 最新版本, 版本号, 稳定版, 最新, 哪个版本, crate 信息, 文档, 依赖, Rust 版本, 新特性, 有什么特性"
bio-single-cell-splicing
by GPTomics
Analyzes alternative splicing at single-cell resolution using BRIE2 for probabilistic PSI estimation or leafcutter2 for cluster-based analysis with NMD detection. Identifies cell-type-specific splicing patterns. Use when analyzing isoform usage in scRNA-seq or finding splicing differences between cell populations.
bio-atac-seq-differential-accessibility
by GPTomics
Find differentially accessible chromatin regions between conditions using DiffBind or DESeq2. Use when comparing chromatin accessibility between treatment groups, cell types, or developmental stages in ATAC-seq experiments.
bio-alignment-pairwise
by GPTomics
Perform pairwise sequence alignment using Biopython Bio.Align.PairwiseAligner. Use when comparing two sequences, finding optimal alignments, scoring similarity, and identifying local or global matches between DNA, RNA, or protein sequences.