Coding & Dev Tools

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Resolves Fusion compatibility errors, applies dbt-autofix for deprecations and package updates, and iterates with dbtf parse/compile until the project compiles cleanly. Use when migrating a dbt project from dbt Core to the Fusion engine, addressing deprecations, or running dbtf commands.

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Assesses RNA-seq data quality for splicing analysis including junction saturation curves, splice site strength scoring, and junction coverage metrics using RSeQC. Use when evaluating data suitability for splicing analysis or troubleshooting low event detection.

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Predict TCR-epitope specificity using ERGO-II and deep learning models for T-cell receptor antigen recognition. Match TCRs to their cognate epitopes or predict TCR targets. Use when analyzing TCR repertoire specificity or identifying antigen-reactive T-cells.

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Autonomous tech debt elimination. Combines /deslop + /qa into an iterative fix loop. Scans for code slop and architecture issues, prioritizes by severity, and autonomously fixes until completion. Use when asked to "burn down debt", "clean up codebase", or "/burndown".

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Find CNetworkGameServer_GetFreeClient

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This skill should be used when the user asks to persist learnings to memory. Triggers on "extract learnings", "save this for next time", "remember this pattern", "add this to memory", "update CLAUDE.md with what we learned", "store this insight".

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Use when beginning any design process - orchestrates gathering context, clarifying requirements, brainstorming solutions, and documenting validated designs to create implementation-ready design documents

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RepoQA evaluates long-context code understanding by testing whether agents can find and identify specific functions within large repository codebases.

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Generate an AI-powered conventional commit message from your git diff and commit changes

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Critical plan reviewer. Reviews plans to find flaws, edge cases, and problems BEFORE execution.

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WebArena evaluates autonomous web agents in realistic web environments featuring functional e-commerce sites, forums, content management systems, and maps with multi-step interaction tasks.

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Siliconflow - Other

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Identifies super-enhancers from H3K27ac ChIP-seq data using ROSE and related tools. Use when studying cell identity genes, cancer-associated regulatory elements, or master transcription factor binding regions that cluster into large enhancer domains.

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Build enhancer-driven gene regulatory networks by integrating single-cell RNA-seq and ATAC-seq data using SCENIC+ to identify eRegulons linking transcription factors to enhancers and target genes. Use when analyzing 10x multiome or paired scRNA+scATAC data to infer cis-regulatory GRNs.

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Differential abundance and state analysis for cytometry data. Compare cell populations between conditions using statistical methods. Use when testing for significant changes in cell frequencies or marker expression between groups.

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Quality control for pooled CRISPR screens. Covers library representation, read distribution, replicate correlation, and essential gene recovery. Use when assessing screen quality before hit calling or diagnosing poor screen performance.

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Visualize differential expression results using DESeq2/edgeR built-in functions. Covers plotMA, plotDispEsts, plotCounts, plotBCV, sample distance heatmaps, and p-value histograms. Use when visualizing differential expression results.

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Reviews Go code for idiomatic patterns, error handling, concurrency safety, and common mistakes. Use when reviewing .go files, checking error handling, goroutine usage, or interface design.

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Mandatory verification steps for all code reviews to reduce false positives. Load this skill before reporting ANY code review findings.

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Track new token launches across DEXes with risk analysis and contract verification. Use when discovering new token launches, monitoring IDOs, or analyzing token contracts. Trigger with phrases like "track launches", "find new tokens", "new pairs on uniswap", "token risk analysis", or "monitor IDOs".

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bidict: Bidirectional Mapping Library

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Safely update Dex with one command (handles everything automatically)

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Discover unused Dex features based on your usage patterns

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Download large datasets from NCBI efficiently using history server, batching, and rate limiting. Use when performing bulk sequence downloads, handling large query results, or production-scale data retrieval.

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Carmack-level plan review via RepoPrompt or Codex. Use when reviewing Flow epic specs or design docs. Triggers on /flow-next:plan-review.

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CyberGym is a cybersecurity benchmark from UC Berkeley where agents generate Proof-of-Concept exploits for real C/C++ vulnerabilities across four difficulty levels.

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Tracks ctDNA dynamics over time for treatment response monitoring using serial liquid biopsy samples. Analyzes tumor fraction trends, mutation clearance kinetics, and defines molecular response criteria. Use when monitoring patients during therapy or detecting molecular relapse before clinical progression.

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Call HLA alleles from NGS data using OptiType, HLA-HD, or arcasHLA for immunogenomics applications. Use when determining HLA genotype for transplant matching, neoantigen prediction, or pharmacogenomic screening.

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Calculates species richness, diversity, and turnover using the Hill number framework with iNEXT coverage-based rarefaction/extrapolation, asymptotic diversity estimation, and beta diversity partitioning (betapart turnover vs nestedness). Compares assemblages using coverage-standardized rather than size-standardized rarefaction. Use when quantifying biodiversity from species abundance or incidence data, comparing diversity across sites, or constructing rarefaction curves. Not for clinical 16S microbiome alpha/beta diversity (see microbiome/diversity-analysis).

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Select and apply colorblind-friendly palettes for scientific figures using viridis, RColorBrewer, and custom color schemes. Use when selecting colorblind-friendly palettes for figures.

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Alpha and beta diversity analysis for microbiome data. Calculate within-sample richness, evenness, and between-sample dissimilarity with phyloseq and vegan. Use when comparing community composition across samples or testing for group differences in microbiome structure.

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Analyze time-series RNA-seq data using limma voom with splines, maSigPro, and ImpulseDE2. Identify genes with dynamic expression patterns. Use when analyzing time-series or longitudinal expression data.

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Download sequencing data from NCBI SRA using the SRA toolkit. Use when downloading FASTQ files from SRA accessions, prefetching large datasets, or validating SRA downloads.

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Perform V(D)J alignment and clonotype assembly from TCR-seq or BCR-seq data using MiXCR. Use when processing raw immune repertoire sequencing data to identify clonotypes and their frequencies.

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Assign GO terms, KEGG orthologs, Pfam domains, and EC numbers to predicted proteins using eggNOG-mapper and InterProScan. Produces functional summaries for downstream pathway and enrichment analysis. Use when adding functional annotation to predicted genes or characterizing protein functions in a new genome.

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Strategically route orphaned files and extract scattered tasks