AMR (antimicrobial resistance)
PYPI · AMR-MCP
Antimicrobial resistance genes, sequences and literature from NCBI and UniProt
Available components
Last scanned (21 hours ago)
Scores higher than 78% of PyPI servers
Category Health and Science
How this component scores in each security and reliability category. Every signal is checked automatically from public evidence about the published package, including repeated runs of it in an isolated sandbox, and we only credit what we can confirm. How we score → Why this is hard to score →
Supply Chain Security100
- No malware found by supply-chain analysis.Pass
- No known CVEs affecting this package version or its production dependencies.Pass
- Runs hatchling.build at install time, a recognised build step with no custom scripting around it. View diagnostics → Pass
- 1 of 31 dependencies flagged as unhealthy. View diagnostics → Partial
Provenance & Transparency97
- Source repository is publicly reachable at the declared URL. View diagnostics → Pass
- Cryptographically verified build provenance (signed, bound to pabloestepaa/amr-mcp). View diagnostics → Pass
- Clear OSI-approved license (MIT).Pass
- Actively maintained (last published 0 days ago).Pass
- Disclosure check failed: no security disclosure policy was found in the source repository. See how to fix → Fail
Schema Quality & AI Usability69
- AI-judged instruction clarity (good).Pass
- Tool/resource definitions use about 850 tokens (~85/item across 10 items; 10 tools + 0 resources), lean.Pass
- Usage-examples check failed: none of the tools include examples. See how to fix → Fail
Stability & Change Management0
- Stability not yet verified: not enough scan history yet (needs a 30-day window).Unverified
Tool Coverage94
- 100% of tools have a non-trivial description (not blank, and not just the tool's name).Pass
- 80% of tool parameters carry a description.Partial
- Structured output schemas are declared (100% of tools); any adoption earns full credit.Pass
Tool Safety100
- No prompt-injection markers were found in the server instructions, tool names or descriptions we captured.Pass
- We read all 10 captured tool definition(s), and no name or description among them implies an irreversible operation.Pass
- An AI judge read all 11 captured unit(s) of tool text and found none that tries to manipulate the model reading it.Pass
Capabilities100
- Implements a current MCP spec version (2026-07-28).Pass
Unverified: 1 category
A category scored 0 because we could not verify it: a data source with nothing on this package, evidence we could not reach, or a check we could not run. We only credit what we can confirm.
Every change we have recorded for this component, newest first. Security-relevant changes are always shown. ▲ marks a change for the better, ▼ a change for the worse; unmarked changes are neutral.
- 3 Nov 26 79
First indexed and scored.
Diagnostic detail from the automated scan of this channel: what the scanner observed at each step, so you can see exactly where a check passed or failed. It is informational only and never changes the trust score.
Captured 4 Nov 2026 · Analysed pypi/amr-mcp@0.1.3
Provenance Verified
A signed build attestation was found and verified, binding this exact artifact to the source repository it claims to come from.
| Result | Verified |
|---|---|
| Ecosystem | pypi |
| Reason | Verified |
| Discovered via | Registry attestation endpoint |
| Source repo | pabloestepaa/amr-mcp |
| Certificate issuer | https://token.actions.githubusercontent.com |
| Certificate SAN | https://github.com/pabloestepaa/amr-mcp/.github/workflows/release.yml@refs/tags/v0.1.3 |
| Rekor log index | 3678806796 |
| Predicate type | PyPI publish attestation https://docs.pypi.org/attestations/publish/v1 |
| Subject digest | sha256:9c1efd3ab686582be8d5e41f0498e561ac7c2606486668654f64bd5e26a7d46c |
Background: How many MCP packages publish verified provenance →
Install scripts 1 script
| Hook | Tier | Command |
|---|---|---|
| build_backend | allowlisted | hatchling.build |
Background: Why install scripts are a supply-chain risk →
Dependencies 31 packages
| Packages resolved | 31 |
|---|---|
| No linked repository | 1 |
| Tree resolution | Complete |
Background: SBOMs and build attestations, explained →
The tools this component advertises to a client, with an estimated token cost for each. Expand a tool to see its parameters and schema. The per-tool counts are indicative and are not scored directly; the schema's total context footprint is one signal in Schema Quality & AI Usability. A tool's description is untrusted text the model reads on every call, which is what makes this list a security surface and not just an inventory: how tool poisoning works →
catalog_info ~22
Version and size of the NCBI Reference Gene Catalog in use.
Input schema present but exposes no named parameters.
Structured output declared, but exposes no named fields.
No examples provided.
fetch_sequence ~59
Fetch a protein or nucleotide sequence from NCBI in FASTA form.
| Name | Type | Req | Description |
|---|---|---|---|
| accession | string | yes | NCBI accession, e.g. WP_004199234.1 or NG_049253.1 |
| kind | string | – | – |
Structured output declared, but exposes no named fields.
No examples provided.
get_amr_gene ~60
Full catalog record for an allele, or a summary of all alleles in a gene family.
| Name | Type | Req | Description |
|---|---|---|---|
| name | string | yes | Exact allele (e.g. 'blaKPC-2') or gene family (e.g. 'blaKPC') |
Structured output declared, but exposes no named fields.
No examples provided.
get_protein_hosts ~69
Species in which NCBI has sequenced this exact protein (Identical Protein Groups), with record counts.
| Name | Type | Req | Description |
|---|---|---|---|
| accession | string | yes | Protein accession, ideally the catalog's RefSeq WP_ one, e.g. WP_004199234.1 |
| top | integer | – | – |
Structured output declared, but exposes no named fields.
No examples provided.
get_pubmed_references ~48
Title, journal, date, authors and DOI for PubMed articles.
| Name | Type | Req | Description |
|---|---|---|---|
| pmids | array | yes | PubMed IDs, e.g. from a catalog entry's pubmed_reference |
Structured output declared, but exposes no named fields.
No examples provided.
get_uniprot_entry ~45
Function, keywords, cross-references and sequence of a UniProtKB entry.
| Name | Type | Req | Description |
|---|---|---|---|
| accession | string | yes | UniProt accession, e.g. Q9F663 |
Structured output declared, but exposes no named fields.
No examples provided.
list_drug_classes ~24
All drug classes in the catalog with the number of entries for each.
Input schema present but exposes no named parameters.
Structured output declared, but exposes no named fields.
No examples provided.
run_amrfinder ~86
Screen a local genome or proteome for AMR genes with AMRFinderPlus (must be installed locally).
| Name | Type | Req | Description |
|---|---|---|---|
| fasta_path | string | yes | Absolute path to a local FASTA file |
| organism | – | – | Enables point-mutation screening, e.g. 'Escherichia', 'Klebsiella_pneumoniae' |
| sequence_type | string | – | – |
Structured output declared, but exposes no named fields.
No examples provided.
search_amr_genes ~209
Search the NCBI Reference Gene Catalog of AMR, stress and virulence genes and point mutations.
| Name | Type | Req | Description |
|---|---|---|---|
| drug_class | – | – | e.g. BETA-LACTAM, COLISTIN, AMINOGLYCOSIDE |
| element_type | – | – | Element type |
| group_by_family | boolean | – | Return one row per gene family with its entry count; use for broad searches |
| limit | integer | – | Max entries, or max families when grouping |
| organism | – | – | Drop entries the catalog restricts to other taxa, e.g. 'Klebsiella pneumoniae'. Most acquired genes have no restriction, so this does not show where a gene has been found: use get_protein_hosts for t… |
| query | – | – | Text in allele, gene family, product name or synonyms, e.g. 'KPC', 'mcr', 'carbapenemase' |
| subclass | – | – | e.g. CARBAPENEM, CEPHALOSPORIN |
Structured output declared, but exposes no named fields.
No examples provided.
search_uniprot ~76
Search UniProtKB proteins.
| Name | Type | Req | Description |
|---|---|---|---|
| limit | integer | – | – |
| query | string | yes | UniProt query syntax, e.g. 'gene:KPC-2' or 'carbapenemase AND organism_id:573' |
| reviewed_only | boolean | – | Only Swiss-Prot (manually reviewed) entries |
Structured output declared, but exposes no named fields.
No examples provided.
How do I install the AMR (antimicrobial resistance) MCP server?
AMR (antimicrobial resistance) runs locally as a PyPI package, launched with uvx amr-mcp. Ready-made configuration for Claude, Cursor, VS Code, Codex and 5 more is on this page, copied from each client's own documentation.
pypi · amr-mcp
claude mcp add pabloestepaa-amr-mcp -- uvx amr-mcp
What is the AMR (antimicrobial resistance) MCP server?
AMR (antimicrobial resistance) is an MCP server listed in the public MCP registry as io.github.pabloestepaa/amr-mcp. Antimicrobial resistance genes, sequences and literature from NCBI and UniProt. This page covers its PyPI package (amr-mcp).
Is the AMR (antimicrobial resistance) MCP server safe to use?
AMR (antimicrobial resistance) scores 79 out of 100 on VerifyMCP. We found no known CVEs affecting it as of 4 November 2026. Its build provenance is signed and verified. That is a record of what we were able to check automatically, not an endorsement. The category breakdown on this page shows every signal behind the number, including the ones we could not confirm.
What tools does the AMR (antimicrobial resistance) MCP server expose?
AMR (antimicrobial resistance) exposes 10 tools: catalog_info, list_drug_classes, search_amr_genes, get_amr_gene, fetch_sequence, and 5 more. Their descriptions and schemas cost roughly 698 tokens of context every time the server is loaded.
Is the AMR (antimicrobial resistance) MCP server still maintained?
AMR (antimicrobial resistance) is still listed as active in the MCP registry. We last reached this channel on 4 November 2026. Those dates come from our own scans of the registry and the channel itself, not from anything the publisher announced.
What licence is the AMR (antimicrobial resistance) MCP server under?
AMR (antimicrobial resistance) declares the MIT licence, which is OSI-approved. That covers the source only, and says nothing about the cost of any service it calls.