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tamarind

Provides access to a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required. Tamarind bundles popular open-source models for structure prediction (AlphaFold, Boltz, Chai, ESMFold), protein, binder, and de novo design (RFdiffusion, ProteinMPNN, BoltzGen), antibody and nanobody design and developability, protein-ligand docking (DiffDock, Autodock Vina), binding-affinity prediction, MSA generation, and molecular dynamics. Use when the user mentions Tamarind or tamarind.bio, wants to run any of these open-source tools in the cloud, references app.tamarind.bio/api or the x-api-key header, or needs to submit batches of sequences for structural or biophysical characterization.

Quality

89%

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SecuritybySnyk

Passed

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SKILL.md
Quality
Evals
Security

Quality

Content

85%Weight 40%Scale 1-5

Reviews the quality of instructions and guidance provided to agents. Good implementation is clear, handles edge cases, and produces reliable results.

A well-engineered skill body: a clearly sequenced workflow with mandated validation and bounded polling, dense actionable API contracts, and clean one-level-deep reference files that carry the executable recipes. The only trims available are redundant verification-scope disclaimers and a couple of over-long caveat sentences.

DimensionReasoningScore

Conciseness

The body is dense with platform-specific gotchas that earn their tokens (plain-text submit receipts, 202 result handling, soft-delete semantics, the tamarind vs tamarind-cli package warning) and contains no padding of concepts Claude already knows. It misses a 5 because the verification-scope disclaimer ('authenticated execution remains untested') is repeated in three places, and a few multi-clause caveat sentences could be tightened.

4 / 5

Actionability

Concrete guidance throughout: executable curl discovery commands, exact endpoint contracts (POST /validate-job, GET /jobs?jobName=..., POST /result), and hard limits (1,000 rows per validate call, 30,000 expanded jobs, ~4.5 MB request limit), with full executable Python recipes verified present in references/workflows.md. Not a 5 because the body itself contains no inline submit/validate/poll code — the copy-paste recipes are entirely delegated to the reference file.

4 / 5

Workflow Clarity

The six-step Workflow section is explicitly sequenced (Discover → Read schema → Validate → Submit once → Poll → Download) with validation as a mandated step ('Check HTTP status first, then JSON valid... Address unrecognized_settings if returned, even alongside valid: true'), bounded polling with named terminal states, and a dedicated Recovery section giving feedback loops for timeouts, 413s, and route-specific auth failures. This matches the anchor: clear sequence with explicit validation steps and error-recovery loops.

5 / 5

Progressive Disclosure

SKILL.md is a genuine overview, and the four reference files (api_reference.md, tool_catalog.md, examples.md, workflows.md) all exist, are one level deep, and are clearly signaled — the Reference files section annotates each with a one-line content description, and inline pointers appear at the relevant sections (e.g., Workflow recipes linked after the workflow steps). Content is appropriately split between overview and detail with easy navigation.

5 / 5

Total

18

/

20

Passed

Description

91%Weight 40%Scale 1-5

Based on the skill's description, can an agent find and select it at the right time? Clear, specific descriptions lead to better discovery.

A strong description: it comprehensively enumerates the platform's tools and capabilities, states both what it does and when to use it with concrete trigger phrases, and scopes itself to a specific named platform. The only weaknesses are generic action verbs and slight overlap risk on bare tool names that could also indicate local installations.

DimensionReasoningScore

Specificity

The description enumerates concrete tools grouped by capability area — 'structure prediction (AlphaFold, Boltz, Chai, ESMFold)', 'RFdiffusion, ProteinMPNN, BoltzGen', 'DiffDock, Autodock Vina' — giving comprehensive coverage of the platform's offerings. It falls short of a 5 only because the action verbs are generic ('Provides access', 'bundles') rather than multiple distinct concrete actions like extracting, filling, and converting.

4 / 5

Completeness

Both halves are explicit: the 'what' is 'Provides access to a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required', and the 'when' is a concrete 'Use when' clause listing Tamarind mentions, cloud execution of the named tools, API references, and batch sequence submission. This matches the anchor-5 example structure exactly.

5 / 5

Trigger Term Quality

Trigger coverage is comprehensive and natural: platform names ('Tamarind or tamarind.bio', 'app.tamarind.bio/api or the x-api-key header'), tool names users actually say (AlphaFold, DiffDock, ProteinMPNN), and task phrases ('structure prediction', 'docking', 'MSA generation', 'submit batches of sequences for structural or biophysical characterization'). Not a 4 because even protocol-level triggers and cloud-execution phrasing are explicitly included.

5 / 5

Distinctiveness Conflict Risk

The niche is clear — a specific named platform with its own REST/MCP endpoints and header, so most triggers are unambiguous. However, generic tool-name triggers like AlphaFold, ESMFold, or ProteinMPNN could also match skills for local installations of those same tools when the user does not say 'cloud' or 'Tamarind', leaving minor overlap risk with closely related bioinformatics skills.

4 / 5

Total

18

/

20

Passed

Validation

93%

Checks the skill against the spec for correct structure and formatting. All validation checks must pass before discovery and implementation can be scored.

Validation — 15 / 16 Passed

Validation for skill structure

CriteriaDescriptionResult

metadata_field

'metadata' should map string keys to string values

Warning

Total

15

/

16

Passed

Repository

K-Dense-AI/scientific-agent-skills

Path

skills/tamarind/SKILL.md

Reviewed

Table of Contents

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