Code Gen
Generate code, boilerplate, scaffolding
tot-exploration
by jmagly
@.aiwg/research/findings/REF-020-tree-of-thoughts.md - Research foundation
skill-creator
by Memento-Teams
Create new skills, modify and improve existing skills, and measure skill performance. Use when users want to create a skill from scratch, update or optimize an existing skill, run evals to test a skill, benchmark skill performance with variance analysis, or optimize a skill's description for better triggering accuracy.
canvas-design
by Kilo-Org
Create beautiful visual art in .png and .pdf documents using design philosophy. You should use this skill when the user asks to create a poster, piece of art, design, or other static piece. Create original visual designs, never copying existing artists' work to avoid copyright violations.
create-plan
by openakita
"MUST CALL FIRST for multi-step tasks! If user request needs 2+ tool calls (like 'open + search + screenshot'), call create_plan BEFORE any other tool."
employment-contract
by open-agreements
Draft and fill employment agreement templates — offer letter, IP assignment, PIIA, confidentiality acknowledgement. Produces signable DOCX files from OpenAgreements standard forms for hiring employees.
safe
by open-agreements
Draft and fill Y Combinator SAFE templates — valuation cap, discount, MFN, pro rata side letter. Standard startup fundraising documents for convertible equity. Produces signable DOCX files.
architecture-evolution
by jmagly
Architecture diagram: .aiwg/architecture/diagrams/
Auto-Provenance
by jmagly
@.claude/rules/qualified-references.md - Qualified reference rules
ospec
by clawplays
Document-driven OSpec workflow for AI-assisted development with change-ready initialization, execution, validation, and archive readiness.
condor-strategy
by Senpi-ai
CONDOR v4.0.1 — One Amazing Trade per Day. Top 50 HL assets, pure trend continuation, apex confluence only. 3TF alignment hard gate + MACRO_TREND_GATE + SM consensus >=70%, MIN_SCORE 12, score-scaled sizing (50%/70%/80%), 10x leverage cap, 6-tier DSL ladder from Kodiak SOL empirical wins. v4.0.1 ships a race-window dedup cache that eliminates the ENGINE_FAILURE retry noise on already-held assets, plus a doubled DSL exit interval to throttle REDUCE_ONLY spam when runtime position-state lags HL.
bio-chipseq-visualization
by GPTomics
Visualize ChIP-seq data using deepTools, Gviz, and ChIPseeker. Create heatmaps, profile plots, and genome browser tracks. Visualize signal around peaks, TSS, or custom regions. Use when visualizing ChIP-seq signal and peaks.
bio-alignment-indexing
by GPTomics
Create and use BAI/CSI indices for BAM/CRAM files using samtools and pysam. Use when enabling random access to alignment files or fetching specific genomic regions.
bio-atac-seq-nucleosome-positioning
by GPTomics
Extract nucleosome positions from ATAC-seq data using NucleoATAC, ATACseqQC, and fragment analysis. Use when analyzing chromatin organization, identifying nucleosome-free regions at promoters, or characterizing nucleosome occupancy patterns from ATAC-seq fragment size distributions.
bio-reference-operations
by GPTomics
Generate consensus sequences and manage reference files using samtools. Use when creating consensus from alignments, indexing references, or creating sequence dictionaries.
bio-similarity-searching
by GPTomics
Performs molecular similarity searches using Tanimoto coefficient on fingerprints via RDKit. Finds structurally similar compounds using ECFP or MACCS keys and clusters molecules by structural similarity using Butina clustering. Use when finding analogs of a query compound or clustering chemical libraries.
bio-atac-seq-atac-qc
by GPTomics
Quality control metrics for ATAC-seq data including fragment size distribution, TSS enrichment, FRiP, and library complexity. Use when assessing ATAC-seq library quality before or after peak calling to identify problematic samples.
bio-isoform-switching
by GPTomics
Analyzes isoform switching events and functional consequences using IsoformSwitchAnalyzeR. Predicts protein domain changes, NMD sensitivity, ORF alterations, and coding potential shifts between conditions. Use when investigating how splicing changes affect protein function.
bio-pileup-generation
by GPTomics
Generate pileup data for variant calling using samtools mpileup and pysam. Use when preparing data for variant calling, analyzing per-position read data, or calculating allele frequencies.
bio-chipseq-peak-calling
by GPTomics
ChIP-seq peak calling using MACS3 (or MACS2). Call narrow peaks for transcription factors or broad peaks for histone modifications. Supports input control, fragment size modeling, and various output formats including narrowPeak and broadPeak BED files. Use when calling peaks from ChIP-seq alignments.
bio-reaction-enumeration
by GPTomics
Enumerates chemical libraries through reaction SMARTS transformations using RDKit. Generates virtual compound libraries from building blocks using defined chemical reactions with product validation. Use when creating combinatorial libraries or enumerating products from synthetic routes.
bio-sashimi-plots
by GPTomics
Creates sashimi plots showing RNA-seq read coverage and splice junction counts using ggsashimi or rmats2sashimiplot. Visualizes differential splicing events with grouped samples and junction read support. Use when visualizing specific splicing events or validating differential splicing results.
bio-molecular-descriptors
by GPTomics
Calculates molecular descriptors and fingerprints using RDKit. Computes Morgan fingerprints (ECFP), MACCS keys, Lipinski properties, QED drug-likeness, TPSA, and 3D conformer descriptors. Use when featurizing molecules for machine learning or filtering by drug-likeness criteria.
GRADE-on-Ingest
by jmagly
@agentic/code/frameworks/sdlc-complete/skills/citation-guard/SKILL.md - Citation guard
incident-triage
by jmagly
Runbooks: .aiwg/deployment/runbooks/