Advanced single-cell multi-omics analysis including scRNA-seq, scCITE-seq, scATAC-seq, and TARGET-seq.
Optimize Bazel builds for large-scale monorepos. Use when configuring Bazel, implementing remote execution, or optimizing build performance for enterprise codebases.
End-to-end 16S amplicon workflow from FASTQ reads to differential abundance. Orchestrates DADA2 ASV inference, taxonomy assignment, diversity analysis, and compositional — from…
Detect somatic and germline copy number variants from targeted, exome, and whole-genome sequencing with CNVkit, a read-depth caller that combines on-target and off-target…
When the user wants to plan product distribution via marketplaces, app stores, or third-party platforms.
When the user wants to add recommendations, links, or content to Grokipedia. Also use when the user mentions "Grokipedia," "GEO wiki," "AI encyclopedia," "suggest Grokipe — from…
Predict protein structures using modern ML models including AlphaFold3, ESMFold, Chai-1, and Boltz-1.
Bulk-query Ensembl BioMart (and other BioMart instances) for cross-database ID mapping, gene/transcript/exon coordinates, and ortholog tables.
Extract, process, and deduplicate reads using Unique Molecular Identifiers (UMIs) with umi_tools. Use when library prep includes UMIs and accurate molecule counting is ne — from…
Guides creation of effective Agent Skills with proper structure and validation. Use when users want to create a new skill, update an existing skill, or need guidance on s — from…
Extract, process, and deduplicate reads using Unique Molecular Identifiers (UMIs) with umi_tools. Use when library prep includes UMIs and accurate molecule counting is ne — from…
Use when executing implementation plans with independent tasks in the current session - dispatches fresh subagent for each task with code review between tasks, enabling f — from…
Estimates circulating tumor DNA fraction from shallow whole-genome sequencing using ichorCNA. Detects copy number alterations via HMM segmentation and calculates ctDNA pe — from…
Parse and write protein structure files using Biopython Bio.PDB. Use when reading PDB, mmCIF, and MMTF files, downloading structures from RCSB PDB, or writing structures — from…
Extend scRNA-seq developmental trajectories with BulkTrajBlend by generating intermediate cells from bulk RNA-seq, training beta-VAE and GNN models, and interpolating mis — from…
Review p11 document comments and replies, then post useful replies to visible threads that ask questions, are unclear, are indecisive, or need input.
Query NCBI Gene via E-utilities/Datasets API. Search by symbol/ID, retrieve gene info (RefSeqs, GO, locations, phenotypes), batch lookups, for gene annotation and functio — from…
Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section — from…
When the user wants to create, optimize, or audit use case pages. Also use when the user mentions "use cases," "use case page," "for [role]," "by persona," "by scenario," "by…
Plot per-group distributions of continuous data using boxplots, violins, beeswarms, quasirandom jitter, and raincloud plots with sample-size honesty (Weissgerber 2015),…
Performs molecular similarity searches using Tanimoto coefficient on fingerprints via RDKit. Finds structurally similar compounds using ECFP or MACCS keys and clusters molecules…
Generate AI videos with Google Veo, Seedance 2.0, HappyHorse, Wan, Grok and 40+ models via inference.sh CLI.
Align short reads using Bowtie2 with local or end-to-end modes. Supports gapped alignment. Use when aligning ChIP-seq, ATAC-seq, or when flexible alignment modes are need — from…
Exports publication-ready figures in various formats with proper resolution, sizing, and typography. Use when preparing figures for journal submission, creating vector gr — from…
RNA-seq specific quality control including rRNA contamination detection, strandedness verification, gene body coverage, and transcript integrity metrics.
MS-DIAL-based metabolomics preprocessing as alternative to XCMS. Covers peak detection, alignment, annotation, and export for downstream analysis.
Extracts and analyzes competitors' ads from ad libraries (Facebook, LinkedIn, etc.) to understand what messaging, problems, and creative approaches are working.
Supervised and unsupervised multi-omics integration with mixOmics. Includes sPLS for pairwise integration and DIABLO for multi-block discriminant analysis.
Quality control and assessment for proteomics data. Use when evaluating proteomics data quality before downstream analysis.
Review UI code for Web Interface Guidelines compliance. Use when asked to \"review my UI\", \"check accessibility\", \"audit design\", \"review UX\", or \"check my site against…
Read biological sequence files (FASTA, FASTQ, GenBank, EMBL, ABI, SFF) using Biopython Bio.SeqIO. Use when parsing sequence files, iterating multi-sequence files, random — from…
When the user wants to create, optimize, or audit a single article/post page (not the blog index). Also use when the user mentions "article page," "blog post page," "single post,"…
Track bacterial strains using MASH, sourmash, fastANI, and inStrain. Compare genomes, detect contamination, and monitor strain-level variation.
All-in-one read preprocessing with fastp including adapter trimming, quality filtering, deduplication, base correction, and HTML report generation.
Generate AI videos with Google Veo, Seedance 2.0, HappyHorse, Wan, Grok and 40+ models via inference.sh CLI.
Analyzes cfDNA fragment size distributions and fragmentomics features using FinaleToolkit or Griffin.
Quality control, filtering, normalization, and feature selection for spatial transcriptomics data. Calculate QC metrics, filter spots/cells, normalize counts, and identif — from…
Suggest better variable, function, and class names based on context and conventions. — from bg-szy/TOP-SKILLS
Enforce proper error handling patterns. Use when writing async code, API calls, or user-facing features.
Iterate on a PR until CI passes. Use when you need to fix CI failures, address review feedback, or continuously push fixes until all checks are green.
Predicts RNA secondary structures using minimum free energy folding and partition function analysis with ViennaRNA (RNAfold, RNAalifold, RNAcofold).
Trim PCR primers from aligned reads in amplicon-panel BAMs using samtools ampliconclip. Use when processing SARS-CoV-2 ARTIC, hereditary cancer panels, ctDNA hot-spot panels, or…
UX research and design toolkit for Senior UX Designer/Researcher including data-driven persona generation, journey mapping, usability testing frameworks, and research syn — from…
Generate and edit images with OpenAI GPT Image 2 (ChatGPT Images 2.0) on RunComfy. Documents GPT Image 2's strengths (embedded text, logos, multilingual typography, instruction…
Generate images with Google Gemini 3.1 Flash Image Preview (Nano Banana 2) via inference.sh CLI. Capabilities: text-to-image, image editing, multi-image input (up to 14 i — from…
Discovers, classifies, and masks repetitive elements and transposable elements with RepeatModeler2 (de novo family library), RepeatMasker (masking against a library), EDT — from…
Toolkit for styling artifacts with a theme. These artifacts can be slides, docs, reportings, HTML landing pages, etc.
Compare Hi-C contact matrices between conditions to identify differential chromatin interactions. Compute log2 fold changes, statistical significance, and visualize diffe — from…
Generate AI videos with Google Veo, Seedance, Wan, Grok and 40+ models via inference.sh CLI. Models: Veo 3.1, Veo 3, Seedance 1.5 Pro, Wan 2.5, Grok Imagine Video, OmniHu — from…
Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified — from…
Access BRENDA enzyme database via SOAP API. Retrieve kinetic parameters (Km, kcat), reaction equations, organism data, and substrate-specific enzyme information for bioch — from…
Create employment contracts, offer letters, and HR policy documents following legal best practices. Use when drafting employment agreements, creating HR policies, or stan — from…
Search Engine Optimization specialist for content strategy, technical SEO, keyword research, and ranking improvements.
Scoring framework for test-kitchen cookoff and omakase-off. Invoked at Phase 4 to evaluate implementations using 5-criteria scoring.
Expert guidance for integrating and building applications with shadcn/ui components, including component discovery, installation, customization, and best practices.
Automatically creates user-facing changelogs from git commits by analyzing commit history, categorizing changes, and transforming technical commits into clear, customer-f — from…
Process multiple sequence files in batch using Biopython. Use when working with many files, merging/splitting sequences, or automating file operations across directories.
Professional web application testing and automation using Playwright with support for multiple browsers, mobile emulation, screenshot capture, network interception, and…
Reconstruct ancestral states at internal phylogenetic nodes for sequences (PAML codeml, IQ-TREE --ancestral, GRASP, FastML), discrete traits (corHMM hidden-rate Markov, ape::ace,…
Query ClinVar for variant pathogenicity classifications, review status, and disease associations via REST API or local VCF.