tooluniverse-spatial-omics-analysis
Spatial multi-omics interpretation pipeline. Transforms spatially variable genes (SVGs), domain annotations, and tissue context into biological insights via domain-by-domain characterization, cell-type composition, spatial gene expression patterns, RNA+protein+metabolite integration. Use for Visium, MERFISH, seqFISH, Slide-seq, spatial proteomics, and spatial multi-omics interpretation. Goes beyond statistics to disease mechanisms and therapeutic opportunities.
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Low
Low-risk findings worth noting
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tessl review fix ./plugin/skills/tooluniverse-spatial-omics-analysis/SKILL.mdLow
Low-risk findings.
1 low severity finding. Worth noting, but not necessarily harmful.
W011: Third-party content exposure detected (indirect prompt injection risk).
What this means
The skill exposes the agent to untrusted, user-generated content from public third-party sources, creating a risk of indirect prompt injection. This includes browsing arbitrary URLs, reading social media posts or forum comments, and analyzing content from unknown websites.
Why it was flagged
Outsider-authored free text enters as user-provided `svgs`, `spatial_domains` (marker genes), and `disease_context`, which are then fed into multiple LLM runtime tool calls such as Phase 0 identifier resolution and Phase 1 gene characterization (e.g., `MyGene_query_genes`, `HPA_*`) without any requirement to pre-select a trusted item.
- Repository
- mims-harvard/ToolUniverse
- Commit
089eb8e
- Audited
- Security analysis
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