Connect to preclinical research tools and databases (literature search, genomics analysis, target prioritization) to accelerate early-stage life sciences R&D
- Stars
- 34,583
- Version
- v1
- Copies
- 0
Overview
Waxell rates it high risk: 35 findings, highest severity critical.
- Highest severity
- critical
- Findings
- 35
- What ran
- Static analysis
A clean result means nothing alarming in what is published, not a guarantee. How the checks work
Skills in this plugin
- instrument-data-to-allotropeAnthropicConvert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use… Review findingsData & analyticsEngineering35k
- nextflow-developmentAnthropicRun nf-core bioinformatics pipelines (rnaseq, sarek, atacseq) on sequencing data. Use when analyzing RNA-seq, WGS/WES, or ATAC-seq data,… High riskData & analyticsResearch35k
- scientific-problem-selectionAnthropicThis skill should be used when scientists need help with research problem selection, project ideation, troubleshooting stuck projects, or… No issuesProductivityResearch35k
- scvi-toolsAnthropicDeep learning for single-cell analysis using scvi-tools. This skill should be used when users need (1) data integration and batch… Review findingsData & analyticsResearch35k
- single-cell-rna-qcAnthropicPerforms quality control on single-cell RNA-seq data (.h5ad or .h5 files) using scverse best practices with MAD-based filtering and… No issuesData & analyticsResearch35k
- startAnthropicSet up your bio-research environment and explore available tools. Use when first getting oriented with the plugin, checking which… No issuesResearchData & analytics35k
We don't republish the plugin's instructions. Read them on GitHub at the reviewed commit.
Security
Security scan
Checked 2 days ago
Result
High risk Waxell rates it high risk: 35 findings, highest severity critical.
Checked with static analysis: servers it launches, packages it installs at runtime, scripts piped to a shell and bundled binaries. Nothing was run. How the checks work
Findings (35)
critical · 3
- critical
Tells Claude to download a script and pipe it to a shell
skills/nextflow-development/SKILL.md:75 · skill_risk:S1
- critical
Tells Claude to download a script and pipe it to a shell
skills/nextflow-development/references/installation.md:15 · skill_risk:S1
- critical
Tells Claude to download a script and pipe it to a shell
skills/nextflow-development/scripts/check_environment.py:120 · skill_risk:S1
high · 22
- high
Tells Claude to install unpinned packages (allotropy, pandas, openpyxl, pdfplumber)
skills/instrument-data-to-allotrope/SKILL.md:37 · skill_risk:S2
- high
Tells Claude to install unpinned packages (allotropy)
skills/instrument-data-to-allotrope/SKILL.md:265 · skill_risk:S2
- high
Tells Claude to install unpinned packages (allotropy)
skills/instrument-data-to-allotrope/scripts/convert_to_asm.py:178 · skill_risk:S2
- high
Tells Claude to install unpinned packages (allotropy, pandas, openpyxl)
skills/instrument-data-to-allotrope/scripts/export_parser.py:33 · skill_risk:S2
- high
Tells Claude to install unpinned packages (allotropy)
skills/instrument-data-to-allotrope/scripts/export_parser.py:54 · skill_risk:S2
- high
Tells Claude to install unpinned packages (pandas)
skills/instrument-data-to-allotrope/scripts/flatten_asm.py:148 · skill_risk:S2
- high
Tells Claude to install unpinned packages (requests, pyyaml)
skills/nextflow-development/references/geo-sra-acquisition.md:415 · skill_risk:S2
- high
Tells Claude to install unpinned packages (nf-core)
skills/nextflow-development/references/installation.md:62 · skill_risk:S2
- high
Tells Claude to install unpinned packages (awscli)
skills/nextflow-development/scripts/manage_genomes.py:297 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scvi-tools)
skills/scvi-tools/references/environment_setup.md:15 · skill_risk:S2
- high
Tells Claude to install unpinned packages (torch)
skills/scvi-tools/references/environment_setup.md:18 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scanpy, leidenalg)
skills/scvi-tools/references/environment_setup.md:21 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scvi-tools, scanpy)
skills/scvi-tools/references/environment_setup.md:33 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scvi-tools, scanpy, squidpy)
skills/scvi-tools/references/environment_setup.md:42 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scvi-tools, mudata, muon)
skills/scvi-tools/references/environment_setup.md:48 · skill_risk:S2
- high
Tells Claude to install unpinned packages (ipykernel)
skills/scvi-tools/references/environment_setup.md:111 · skill_risk:S2
- high
Tells Claude to install unpinned packages (matplotlib, seaborn)
skills/scvi-tools/references/environment_setup.md:115 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scvi-tools, scanpy, anndata, torch)
skills/scvi-tools/references/environment_setup.md:227 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scib-metrics)
skills/scvi-tools/references/scrna_integration.md:227 · skill_risk:S2
- high
Tells Claude to install unpinned packages (torch)
skills/scvi-tools/references/troubleshooting.md:161 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scanpy)
skills/scvi-tools/scripts/cluster_embed.py:180 · skill_risk:S2
- high
Tells Claude to install unpinned packages (scanpy)
skills/scvi-tools/scripts/prepare_data.py:143 · skill_risk:S2
medium · 6
- medium
biorender: connects to an unrecognised server (mcp.services.biorender.com)
.mcp.json · mcp_risk:M9
- medium
biorxiv: connects to an unrecognised server (hcls.mcp.claude.com)
.mcp.json · mcp_risk:M9
- medium
c-trials: connects to an unrecognised server (hcls.mcp.claude.com)
.mcp.json · mcp_risk:M9
- medium
chembl: connects to an unrecognised server (hcls.mcp.claude.com)
.mcp.json · mcp_risk:M9
- medium
wiley: connects to an unrecognised server (connector.scholargateway.ai)
.mcp.json · mcp_risk:M9
- medium
owkin: connects to an unrecognised server (mcp.k.owkin.com)
.mcp.json · mcp_risk:M9
low · 2
- low
consensus: connects to mcp.consensus.app (catalogued, not verified)
.mcp.json · mcp_risk:M9
- low
synapse: connects to mcp.synapse.org (catalogued, not verified)
.mcp.json · mcp_risk:M9
info · 2
- info
pubmed: connects to pubmed.mcp.claude.com (verified in the MCP catalog)
.mcp.json · mcp_risk:M9
- info
ot: connects to mcp.platform.opentargets.org (verified in the MCP catalog)
.mcp.json · mcp_risk:M9
Versions
Version history
Each distinct content we have seen, newest first, with the verdict it got at the time.
One version so far: v1 (1.2.0), seen 2026-11-03.
Files
Files
78 files, 713 KB in total. Names only; open them on GitHub.
- .claude-plugin/plugin.json
- .mcp.json
- CONNECTORS.md
- LICENSE
- README.md
- skills/instrument-data-to-allotrope/LICENSE.txt
- skills/instrument-data-to-allotrope/SKILL.md
- skills/instrument-data-to-allotrope/references/asm_schema_overview.md
- skills/instrument-data-to-allotrope/references/field_classification_guide.md
- skills/instrument-data-to-allotrope/references/flattening_guide.md
- skills/instrument-data-to-allotrope/references/supported_instruments.md
- skills/instrument-data-to-allotrope/requirements.txt
- skills/instrument-data-to-allotrope/scripts/convert_to_asm.py
- skills/instrument-data-to-allotrope/scripts/export_parser.py
- skills/instrument-data-to-allotrope/scripts/flatten_asm.py
- skills/instrument-data-to-allotrope/scripts/validate_asm.py
- skills/nextflow-development/LICENSE.txt
- skills/nextflow-development/SKILL.md
- skills/nextflow-development/references/geo-sra-acquisition.md
- skills/nextflow-development/references/installation.md
- skills/nextflow-development/references/pipelines/atacseq.md
- skills/nextflow-development/references/pipelines/rnaseq.md
- skills/nextflow-development/references/pipelines/sarek.md
- skills/nextflow-development/references/troubleshooting.md
- skills/nextflow-development/scripts/check_environment.py
- skills/nextflow-development/scripts/config/genomes.yaml
- skills/nextflow-development/scripts/config/pipelines/atacseq.yaml
- skills/nextflow-development/scripts/config/pipelines/rnaseq.yaml
- skills/nextflow-development/scripts/config/pipelines/sarek.yaml
- skills/nextflow-development/scripts/detect_data_type.py
- skills/nextflow-development/scripts/generate_samplesheet.py
- skills/nextflow-development/scripts/manage_genomes.py
- skills/nextflow-development/scripts/sra_geo_fetch.py
- skills/nextflow-development/scripts/utils/__init__.py
- skills/nextflow-development/scripts/utils/file_discovery.py
- skills/nextflow-development/scripts/utils/ncbi_utils.py
- skills/nextflow-development/scripts/utils/sample_inference.py
- skills/nextflow-development/scripts/utils/validators.py
- skills/scientific-problem-selection/LICENSE.txt
- skills/scientific-problem-selection/SKILL.md
- skills/scientific-problem-selection/references/01-intuition-pumps.md
- skills/scientific-problem-selection/references/02-risk-assessment.md
- skills/scientific-problem-selection/references/03-optimization-function.md
- skills/scientific-problem-selection/references/04-parameter-strategy.md
- skills/scientific-problem-selection/references/05-decision-tree.md
- skills/scientific-problem-selection/references/06-adversity-planning.md
- skills/scientific-problem-selection/references/07-problem-inversion.md
- skills/scientific-problem-selection/references/08-integration-synthesis.md
- skills/scientific-problem-selection/references/09-meta-framework.md
- skills/scvi-tools/LICENSE.txt
- skills/scvi-tools/SKILL.md
- skills/scvi-tools/references/atac_peakvi.md
- skills/scvi-tools/references/batch_correction_sysvi.md
- skills/scvi-tools/references/citeseq_totalvi.md
- skills/scvi-tools/references/data_preparation.md
- skills/scvi-tools/references/environment_setup.md
- skills/scvi-tools/references/label_transfer.md
- skills/scvi-tools/references/multiome_multivi.md
- skills/scvi-tools/references/rna_velocity_velovi.md
- skills/scvi-tools/references/scarches_mapping.md
- skills/scvi-tools/references/scrna_integration.md
- skills/scvi-tools/references/spatial_deconvolution.md
- skills/scvi-tools/references/troubleshooting.md
- skills/scvi-tools/scripts/cluster_embed.py
- skills/scvi-tools/scripts/differential_expression.py
- skills/scvi-tools/scripts/integrate_datasets.py
- skills/scvi-tools/scripts/model_utils.py
- skills/scvi-tools/scripts/prepare_data.py
- skills/scvi-tools/scripts/train_model.py
- skills/scvi-tools/scripts/transfer_labels.py
- skills/scvi-tools/scripts/validate_adata.py
- skills/single-cell-rna-qc/LICENSE.txt
- skills/single-cell-rna-qc/SKILL.md
- skills/single-cell-rna-qc/references/scverse_qc_guidelines.md
- skills/single-cell-rna-qc/scripts/qc_analysis.py
- skills/single-cell-rna-qc/scripts/qc_core.py
- skills/single-cell-rna-qc/scripts/qc_plotting.py
- skills/start/SKILL.md
See and control which skills your people use
Inside your organization, Waxell scans each skill and plugin before anyone installs it, approves what passes and publishes it to a private marketplace, and puts every MCP tool call behind one governed URL.
30 minutes. No commitment.
SOC 2 Type II attested · ISO/IEC 27001:2022 certified · HIPAA with a BAA · aligned to the EU AI Act and NIST AI RMF
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