bioskills
Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed.
What this skill does
# bioSkills Installer Meta-skill that installs the full bioSkills collection (425 skills across 62 categories) for bioinformatics analysis. ## Installation Run the bundled install script to download and install all bioSkills: ```bash bash scripts/install-bioskills.sh ``` Or install only specific categories: ```bash bash scripts/install-bioskills.sh --categories "single-cell,variant-calling,differential-expression" ``` ## What Gets Installed 425 skills across 62 categories covering: - **Sequence & Alignment** (40): sequence-io, sequence-manipulation, alignment, alignment-files, database-access - **Read Processing** (11): read-qc, read-alignment - **RNA-seq & Expression** (14): differential-expression, rna-quantification, expression-matrix - **Single-Cell & Spatial** (25): single-cell, spatial-transcriptomics - **Variant Analysis** (21): variant-calling, copy-number, phasing-imputation - **Epigenomics** (25): chip-seq, atac-seq, methylation-analysis, hi-c-analysis - **Metagenomics & Microbiome** (13): metagenomics, microbiome - **Genomics & Assembly** (29): genome-assembly, genome-annotation, genome-intervals, genome-engineering, primer-design - **Regulatory & Causal** (13): gene-regulatory-networks, causal-genomics, rna-structure - **Temporal & Ecological** (11): temporal-genomics, ecological-genomics - **Immunology & Clinical** (25): immunoinformatics, clinical-databases, tcr-bcr-analysis, epidemiological-genomics - **Specialized Omics** (36): proteomics, metabolomics, alternative-splicing, chemoinformatics, liquid-biopsy - **RNA Biology** (20): small-rna-seq, epitranscriptomics, clip-seq, ribo-seq - **Phylogenetics & Evolution** (16): phylogenetics, population-genetics, comparative-genomics - **Structural & Systems** (11): structural-biology, systems-biology - **Screens & Cytometry** (22): crispr-screens, flow-cytometry, imaging-mass-cytometry - **Pathway & Integration** (14): pathway-analysis, multi-omics-integration, restriction-analysis - **Infrastructure** (39): data-visualization, machine-learning, workflow-management, reporting, experimental-design, long-read-sequencing - **Workflows** (40): end-to-end pipelines (FASTQ to results) ## After Installation Once installed, skills are automatically triggered based on the task at hand. Example requests: - "I have RNA-seq counts from treated vs control samples - find the differentially expressed genes" - "Call variants from this whole genome sequencing BAM file" - "Cluster my single-cell RNA-seq data and find marker genes" - "Predict the structure of this protein sequence" - "Run a metagenomics classification on these shotgun reads" ## Source GitHub: https://github.com/GPTomics/bioSkills
Related in Productivity
gitea-workflow
IncludedOrchestrate agile development workflows for Gitea repositories using the tea CLI. Use when working with Gitea-hosted repos and asking to 'run the workflow', 'continue working', 'what's next', 'complete the task cycle', 'start my day', 'end the sprint', 'implement the next task', or wanting guided step-by-step development assistance. Keywords: workflow, orchestrate, agile, task cycle, sprint, daily, implement, review, PR, standup, retrospective, gitea, tea.
microsoft-graph-gateway
IncludedRoute Microsoft Graph work in this workspace. Use when users want to read or write Outlook mail, calendar events, contacts, OneDrive or SharePoint files, Teams, Planner, To Do, users, groups, directory data, or arbitrary Microsoft Graph endpoints from VS Code. Prefer WorkIQ for common read scenarios. Use Microsoft Graph for write actions and gap-read scenarios that need exact Graph properties, filters, permissions, or endpoints.
copilotkit
IncludedUse when building with CopilotKit — setup, development, integrations, debugging, upgrading, or contributing. Routes to the appropriate specialized skill based on the task.
wordly-wisdom
IncludedProvides calibrated decision analysis using Charlie Munger-style multiple mental models, inversion, incentive mapping, circle-of-competence checks, misjudgment audits, second-order effects, and forecast updates. Use when the user asks for an oracle take, a hard call, a decision memo, a premortem, an outside view, a red-team, a sanity-check, what am I missing, think this through, or wants a strategy, hire, investment, plan, product, partnership, or major life choice analysed. Avoid for simple factual lookups or time-sensitive legal, medical, or market questions without fresh evidence.
swain-session
IncludedSession management and project status dashboard. Owns the full session lifecycle (start/work/close/resume), focus lane, bookmarks, worktree detection, and tab naming. Also serves as the project status dashboard — shows active epics, progress, actionable next steps, blocked items, tasks, GitHub issues, and recommendations. Worktree creation is deferred to swain-do task dispatch (SPEC-195). Triggers on: 'session', 'status', 'what's next', 'dashboard', 'overview', 'where are we', 'what should I work on', 'show me priorities', 'bookmark', 'focus on', 'session info'.
gandi
IncludedComprehensive Gandi domain registrar integration for domain and DNS management. Register and manage domains, create/update/delete DNS records (A, AAAA, CNAME, MX, TXT, SRV, and more), configure email forwarding and aliases, check SSL certificate status, create DNS snapshots for safe rollback, bulk update zone files, and monitor domain expiration. Supports multi-domain management, zone file import/export, and automated DNS backups. Includes both read-only and destructive operations with safety controls.