# Shoko-official > Open-source publisher. Listings imported from github.com/Shoko-official — credited to the original author with their license. - **Listings:** 8 - **Total installs:** 0 - **Profile:** https://agentstack.voostack.com/s/shoko-official - **Website:** https://github.com/Shoko-official ## Published listings - [Instrument Data To Allotrope](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-instrument-data-to-allotrope) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-instrument-data-to-allotrope` Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis. Supports auto-detection of instrument types. Outputs include full ASM JSON, flattened CSV for easy import, and exportable Python code for data engi… - [Start](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-bio-research-start) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-bio-research-start` Set up your bio-research environment and explore available tools. Use when first getting oriented with the plugin, checking which literature, drug-discovery, or visualization MCP servers are connected, or surveying available analysis skills before starting a new project. - [Nextflow Development](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-nextflow-development) — Skill · Free — `agentstack add skill-shoko-official-claude-science-system-prompts-nextflow-development` Run nf-core bioinformatics pipelines (rnaseq, sarek, atacseq) on sequencing data. Use when analyzing RNA-seq, WGS/WES, or ATAC-seq data—either local FASTQs or public datasets from GEO/SRA. Triggers on nf-core, Nextflow, FASTQ analysis, variant calling, gene expression, differential expression, GEO reanalysis, GSE/GSM/SRR accessions, or samplesheet creation. - [Scientific Problem Selection](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-scientific-problem-selection) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-scientific-problem-selection` This skill should be used when scientists need help with research problem selection, project ideation, troubleshooting stuck projects, or strategic scientific decisions. Use this skill when users ask to pitch a new research idea, work through a project problem, evaluate project risks, plan research strategy, navigate decision trees, or get help choosing what scientific problem to work on. Typical… - [Scvi Tools](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-scvi-tools) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-scvi-tools` Deep learning for single-cell analysis using scvi-tools. This skill should be used when users need (1) data integration and batch correction with scVI/scANVI, (2) ATAC-seq analysis with PeakVI, (3) CITE-seq multi-modal analysis with totalVI, (4) multiome RNA+ATAC analysis with MultiVI, (5) spatial transcriptomics deconvolution with DestVI, (6) label transfer and reference mapping with scANVI/scAr… - [Single Cell Rna Qc](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-single-cell-rna-qc) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-single-cell-rna-qc` Performs quality control on single-cell RNA-seq data (.h5ad or .h5 files) using scverse best practices with MAD-based filtering and comprehensive visualizations. Use when users request QC analysis, filtering low-quality cells, assessing data quality, or following scverse/scanpy best practices for single-cell analysis. - [Clinical Trial Protocol Skill](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-clinical-trial-protocol) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-clinical-trial-protocol` Generate clinical trial protocols for medical devices or drugs. This skill should be used when users say "Create a clinical trial protocol", "Generate protocol for [device/drug]", "Help me design a clinical study", "Research similar trials for [intervention]", or when developing FDA submission documentation for investigational products. - [Conducting Scientific Research](https://agentstack.voostack.com/l/skill-shoko-official-claude-science-system-prompts-conducting-scientific-research) — Skill · Free · security-reviewed — `agentstack add skill-shoko-official-claude-science-system-prompts-conducting-scientific-research` Conduct rigorous, reproducible multi-step scientific work with literature, databases, local files, Python, R, shell, artifacts, reviewers, and approved compute. Use for evidence synthesis, data or statistical analysis, machine learning, simulation, study design, scientific figures or manuscripts, reproduction audits, and database curation. Do not invoke for a simple timeless science fact that nee… --- Seller on AgentStack — the marketplace for AI agent skills and MCP servers. Every listing is security-reviewed. Install any with `agentstack add `.