📦
venue-templates
85Prepare Academic Venue Submissions
Academic submissions often fail because formatting rules vary by venue. This skill provides templates, requirements, and examples for faster preparation.
Research & Learning View
Skills citation-management
📦
citation-management
Content revision r1 Medium Risk 🌐 Network access🔑 Env variables📁 Filesystem access⚙️ External commands
Manage Academic Citations and BibTeX
Academic citation work often fails because metadata, DOIs, and BibTeX entries drift out of sync. This skill provides search, extraction, validation, and formatting workflows for reliable research references.
Supports: Claude Codex Code(CC)
Install with my Agent
Copy this request to your Agent. It includes the canonical Skill page and manifest.
Agent request
Review the Skillstore skill "citation-management" from https://skillstore.io/skills/k-dense-ai-citation-management.md and its manifest at https://skillstore.io/api/skills/k-dense-ai-citation-management/manifest. Verify the artifact. You may proceed after verification, subject to the environment's own policy.Your Agent should still show its plan and request any confirmation required by the security policy.
Agent-readable resources
Use these links when an AI agent, crawler, or script needs clean context instead of reading the full page.
Test it
Using "citation-management". A DOI for a journal article
Expected outcome:
A verified article citation with citation key, authors, title, journal, publication year, DOI, and source metadata notes.
Using "citation-management". A PubMed query about immunotherapy clinical trials
Expected outcome:
A ranked paper list with titles, authors, journals, years, PMIDs, abstracts when available, and suggested citation records.
Using "citation-management". A BibTeX file with duplicate entries and missing fields
Expected outcome:
A validation summary listing critical errors, warnings, duplicate groups, and recommended fixes before manuscript submission.
Security Audit
Medium Riskv9 • 7/9/2026 Open versioned report
Most static alerts are false positives from Markdown code fences, BibTeX examples, documentation links, placeholder API keys, DOI strings, and readable Python scripts. Confirmed risks are executable network clients, optional environment credential handling, user-directed file writes, and a Google Scholar free-proxy option. No prompt-injection override text was found in the reviewed skill files.
14
Files scanned
8,213
Lines analyzed
40
Review items
0
False positives ignored
Confirmed security concerns (4)
Medium
System reconnaissance
use_proxy: Use free proxy (helps avoid rate limiting)
The Google Scholar tool offers a free-proxy mode to avoid rate limiting. That can disclose queries to untrusted proxies and bypass provider controls.
Medium
System reconnaissance
help='Use free proxy to avoid rate limiting'
The Google Scholar tool offers a free-proxy mode to avoid rate limiting. That can disclose queries to untrusted proxies and bypass provider controls.
Medium
scripts/search_google_scholar.py:32scripts/search_google_scholar.py:37-42scripts/search_google_scholar.py:218-220
Free Proxy Use for Google Scholar Queries
The Google Scholar script supports a free-proxy mode described as a way to avoid rate limiting. This can disclose research queries to untrusted proxies and bypass provider controls.
The script explicitly creates FreeProxies and exposes a --use-proxy option. The intent is clear from the help text and implementation.
Medium
Unexpected Cross-Skill Image Generation Recommendation
SKILL.md recommends default scientific schematic generation through another skill and an unbundled generate_schematic.py command. This can trigger unrelated external processing during citation work.
The text explicitly asks for default schematic generation and names an external image-generation workflow. It is not direct malware, but it broadens the skill behavior beyond citation management.
Capability review items (40)
These are real local capabilities that may be expected for this skill, so they require review but are not counted as confirmed malicious behavior.
High
Generic API/secret keys
api_key = os.getenv('NCBI_API_KEY')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
if api_key:
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
params['api_key'] = api_key
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
def __init__(self, api_key: Optional[str] = None, email: Optional[str] = None):
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
api_key: NCBI API key (optional but recommended)
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
self.api_key = api_key or os.getenv('NCBI_API_KEY', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
self.delay = 0.11 if self.api_key else 0.34 # 10/sec with key, 3/sec without
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
if self.api_key:
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
params['api_key'] = self.api_key
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
if self.api_key:
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
params['api_key'] = self.api_key
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
help='NCBI API key (or set NCBI_API_KEY env var)'
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
High
Generic API/secret keys
searcher = PubMedSearcher(api_key=args.api_key, email=args.email)
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
Python file write/append
with open(args.output, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Medium
Python file write/append
with open(args.output, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Medium
Python getenv function
self.email = email or os.getenv('NCBI_EMAIL', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
Python getenv function
api_key = os.getenv('NCBI_API_KEY')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
getenv function call
self.email = email or os.getenv('NCBI_EMAIL', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
getenv function call
api_key = os.getenv('NCBI_API_KEY')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
Python file write/append
with open(output_file, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Medium
Python file write/append
with open(args.output, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Medium
Python file write/append
with open(args.output, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Medium
Python getenv function
self.api_key = api_key or os.getenv('NCBI_API_KEY', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
Python getenv function
self.email = email or os.getenv('NCBI_EMAIL', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
getenv function call
self.api_key = api_key or os.getenv('NCBI_API_KEY', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
getenv function call
self.email = email or os.getenv('NCBI_EMAIL', '')
The script reads optional NCBI_API_KEY or NCBI_EMAIL values, or forwards an API key parameter to PubMed requests. This is legitimate for NCBI rate limits but still handles environment credentials.
Medium
Python file write/append
with open(args.report, 'w', encoding='utf-8') as f:
The script writes generated citations, search results, formatted BibTeX, or reports to a user-provided path. This is expected output behavior but is real filesystem modification and can overwrite files.
Low
Python HTTP libraries
self.session = requests.Session()
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Python HTTP libraries
except requests.exceptions.Timeout:
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Python HTTP libraries
except requests.exceptions.RequestException as e:
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Hardcoded URL
url = f'https://doi.org/{doi}'
The script builds a doi.org URL and performs an HTTP request to fetch BibTeX metadata. This sends user-provided DOI identifiers to an external service.
Low
Python HTTP libraries
self.session = requests.Session()
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Hardcoded URL
url = f'https://api.crossref.org/works/{doi}'
The script constructs requests to CrossRef, PubMed E-utilities, or arXiv to retrieve citation metadata. This expected behavior sends identifiers to external scholarly APIs.
Low
Hardcoded URL
url = f'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi'
The script constructs requests to CrossRef, PubMed E-utilities, or arXiv to retrieve citation metadata. This expected behavior sends identifiers to external scholarly APIs.
Low
Hardcoded URL
url = 'http://export.arxiv.org/api/query'
The script constructs requests to CrossRef, PubMed E-utilities, or arXiv to retrieve citation metadata. This expected behavior sends identifiers to external scholarly APIs.
Low
Python HTTP libraries
self.session = requests.Session()
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Hardcoded URL
self.base_url = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/'
The script hardcodes the PubMed E-utilities base URL and uses it for searches and metadata fetches. This is expected but confirms external network access.
Low
Python HTTP libraries
self.session = requests.Session()
The script uses the requests library as part of citation lookup and validation workflows. This is expected functionality but confirms external network capability.
Low
Hardcoded URL
url = f'https://doi.org/{doi}'
The validator contacts doi.org and CrossRef when DOI checking is enabled. This expected behavior sends DOI values to external services.
Low
Hardcoded URL
crossref_url = f'https://api.crossref.org/works/{doi}'
The validator contacts doi.org and CrossRef when DOI checking is enabled. This expected behavior sends DOI values to external services.
Risk Factors
🌐 Network access (76)
assets/bibtex_template.bib:87 assets/bibtex_template.bib:187 assets/bibtex_template.bib:201 assets/bibtex_template.bib:214 assets/bibtex_template.bib:165 assets/citation_checklist.md:253 references/bibtex_formatting.md:317 references/bibtex_formatting.md:390 references/bibtex_formatting.md:589 references/bibtex_formatting.md:600 references/bibtex_formatting.md:612 references/bibtex_formatting.md:805 references/bibtex_formatting.md:885 references/bibtex_formatting.md:293 references/citation_validation.md:294 references/citation_validation.md:295 references/citation_validation.md:300 references/metadata_extraction.md:132 references/metadata_extraction.md:206 references/metadata_extraction.md:290 references/metadata_extraction.md:297 references/metadata_extraction.md:305 references/metadata_extraction.md:306 references/metadata_extraction.md:340 references/metadata_extraction.md:517 references/metadata_extraction.md:594 references/metadata_extraction.md:607 references/metadata_extraction.md:608 references/metadata_extraction.md:609 references/metadata_extraction.md:612 references/metadata_extraction.md:613 references/metadata_extraction.md:616 references/metadata_extraction.md:617 references/metadata_extraction.md:630 references/metadata_extraction.md:729 references/pubmed_search.md:380 references/pubmed_search.md:414 references/pubmed_search.md:438 references/pubmed_search.md:453 scripts/doi_to_bibtex.py:18 scripts/doi_to_bibtex.py:65 scripts/doi_to_bibtex.py:68 scripts/doi_to_bibtex.py:35 scripts/doi_to_bibtex.py:36 scripts/doi_to_bibtex.py:37 scripts/doi_to_bibtex.py:38 scripts/doi_to_bibtex.py:43 scripts/extract_metadata.py:28 scripts/extract_metadata.py:108 scripts/extract_metadata.py:129 scripts/extract_metadata.py:151 scripts/extract_metadata.py:223 scripts/extract_metadata.py:235 scripts/extract_metadata.py:271 scripts/format_bibtex.py:149 scripts/format_bibtex.py:150 scripts/search_pubmed.py:31 scripts/search_pubmed.py:30 scripts/validate_citations.py:19 scripts/validate_citations.py:212 scripts/validate_citations.py:217 SKILL.md:177 SKILL.md:518 SKILL.md:644 SKILL.md:1056 SKILL.md:1057 SKILL.md:1058 SKILL.md:1061 SKILL.md:1062 SKILL.md:1063 SKILL.md:1064 SKILL.md:1067 SKILL.md:1068 SKILL.md:1069 SKILL.md:1072 SKILL.md:1073
🔑 Env variables (32)
references/metadata_extraction.md:210 references/pubmed_search.md:504 references/pubmed_search.md:504 references/pubmed_search.md:376 references/pubmed_search.md:385 references/pubmed_search.md:410 references/pubmed_search.md:418 references/pubmed_search.md:442 references/pubmed_search.md:494 references/pubmed_search.md:500 references/pubmed_search.md:504 scripts/extract_metadata.py:32 scripts/extract_metadata.py:162 scripts/extract_metadata.py:32 scripts/extract_metadata.py:162 scripts/extract_metadata.py:162 scripts/extract_metadata.py:163 scripts/extract_metadata.py:164 scripts/search_pubmed.py:28 scripts/search_pubmed.py:29 scripts/search_pubmed.py:28 scripts/search_pubmed.py:29 scripts/search_pubmed.py:20 scripts/search_pubmed.py:25 scripts/search_pubmed.py:28 scripts/search_pubmed.py:34 scripts/search_pubmed.py:79 scripts/search_pubmed.py:80 scripts/search_pubmed.py:129 scripts/search_pubmed.py:130 scripts/search_pubmed.py:329 scripts/search_pubmed.py:360
📁 Filesystem access (6)
⚙️ External commands (99)
SKILL.md:44-46 SKILL.md:46-79 SKILL.md:79-91 SKILL.md:91-93 SKILL.md:93-94 SKILL.md:94-95 SKILL.md:95-96 SKILL.md:96-97 SKILL.md:97-113 SKILL.md:113-126 SKILL.md:126-128 SKILL.md:128-129 SKILL.md:129-130 SKILL.md:130 SKILL.md:131 SKILL.md:132-133 SKILL.md:133-151 SKILL.md:151-160 SKILL.md:160-166 SKILL.md:166-181 SKILL.md:181-183 SKILL.md:183-222 SKILL.md:222-225 SKILL.md:225-226 SKILL.md:226-227 SKILL.md:227-228 SKILL.md:228-229 SKILL.md:229-230 SKILL.md:230-234 SKILL.md:234-260 SKILL.md:260-266 SKILL.md:266-291 SKILL.md:291-308 SKILL.md:308-321 SKILL.md:321-323 SKILL.md:323-353 SKILL.md:353-380 SKILL.md:380-388 SKILL.md:388-423 SKILL.md:423-427 SKILL.md:427-433 SKILL.md:433-434 SKILL.md:434-435 SKILL.md:435-436 SKILL.md:436-438 SKILL.md:438-447 SKILL.md:447-484 SKILL.md:484 SKILL.md:485-487 SKILL.md:487-488 SKILL.md:488-496 SKILL.md:496-499 SKILL.md:499-511 SKILL.md:511-519 SKILL.md:519-523 SKILL.md:523-531 SKILL.md:531-534 SKILL.md:534-544 SKILL.md:544-553 SKILL.md:553-569 SKILL.md:569-586 SKILL.md:586-600 SKILL.md:600-618 SKILL.md:618-632 SKILL.md:632-655 SKILL.md:655-670 SKILL.md:670-687 SKILL.md:687-702 SKILL.md:702-724 SKILL.md:724-737 SKILL.md:737-752 SKILL.md:752-878 SKILL.md:878-924 SKILL.md:924-928 SKILL.md:928-940 SKILL.md:940-944 SKILL.md:944-975 SKILL.md:975-979 SKILL.md:979-997 SKILL.md:997-1034 SKILL.md:1034-1035 SKILL.md:1035-1036 SKILL.md:1036-1037 SKILL.md:1037-1038 SKILL.md:1038-1039 SKILL.md:1039-1041 SKILL.md:1041-1042 SKILL.md:1042-1043 SKILL.md:1043-1044 SKILL.md:1044-1045 SKILL.md:1045-1046 SKILL.md:1046-1047 SKILL.md:1047-1049 SKILL.md:1049-1050 SKILL.md:1050-1051 SKILL.md:1051-1079 SKILL.md:1079-1089 SKILL.md:1089-1093 SKILL.md:1093-1097
Detected Patterns
System reconnaissance×2
Audited by: codex View Audit History →
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<a href="https://skillstore.io/skills/k-dense-ai-citation-management?utm_source=security_passport_badge"><img src="https://skillstore.io/badges/skills/k-dense-ai-citation-management/security.svg" alt="Skillstore security assessment" loading="lazy"></a>Embed card
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APA citation
K-Dense-AI. (2026). citation-management security audit report (audit version 9) [Author version unspecified]. Skillstore. https://skillstore.io/skills/k-dense-ai-citation-management/audits/9BibTeX citation
@techreport{k-dense-ai-k-dense-ai-citation-management-2026,
author = {K-Dense-AI},
title = {citation-management security audit report (audit version 9)},
institution = {Skillstore},
year = {2026},
number = {9},
url = {https://skillstore.io/skills/k-dense-ai-citation-management/audits/9},
note = {Author version unspecified}
}CITATION.cff
cff-version: 1.2.0
message: "If you use this Skill, cite its author and this versioned security audit report."
title: "citation-management security audit report (audit version 9)"
version: "unspecified"
type: report
authors:
- name: "K-Dense-AI"
date-released: "2026-07-09"
url: "https://skillstore.io/skills/k-dense-ai-citation-management/audits/9"
identifiers:
- type: other
value: "skillstore:k-dense-ai-citation-management:audit:9"
description: "Skillstore immutable audit report identifier"
Compare variants
2 installable variantsEach author remains a separate installable skill. The recommended variant is ranked by Skillstore evidence.
Why this variant is first
Higher Skillstore usage
Author / source Skillstore Score Evidence Confidence Skillstore usage Updated
davila7 Recommended
davila7-citation-management
Skillstore Score 50
Evidence Confidence High
Skillstore usage 40
Updated
2026-08-21
K-Dense-AI Current
k-dense-ai-citation-management
Skillstore Score 50
Evidence Confidence High
Skillstore usage 38
Updated
2026-08-21
Skillstore Score
Why this score Evidence Confidence: High 82
Architecture
85
Maintainability
87
Content
71
Community
70
Spec Compliance
What You Can Build
Build a Literature Review Bibliography
Find papers, collect metadata, and generate consistent BibTeX entries for a research review.
Prepare a Thesis Reference File
Clean, sort, deduplicate, and validate a growing BibTeX file before submission.
Check Manuscript Citations
Validate DOI formats, required fields, duplicate keys, and citation completeness for publication review.
Try These Prompts
Convert a DOI
Use the citation management skill to convert this DOI to a clean BibTeX entry: [DOI]. Check the author, title, journal, year, and DOI fields.
Search PubMed
Search PubMed for [topic] from [start year] to [end year]. Return the most relevant papers with citations and a short note on each result.
Clean a BibTeX File
Review [file name] for duplicate entries, missing required fields, invalid years, and DOI problems. Provide a prioritized cleanup plan.
Build and Audit a Bibliography
Create a bibliography for [research question]. Search PubMed and Google Scholar, extract metadata, validate citations, and flag uncertain records for manual review.
Best Practices
- Verify generated citations against publisher or DOI metadata before submission.
- Keep output files in a project bibliography directory and review changes with version control.
- Use provider API keys only when needed and keep them in environment variables.
Avoid
- Do not paste private manuscript text into external searches unless approved.
- Do not use free proxies for sensitive research queries.
- Do not overwrite a shared BibTeX file without reviewing the changes.
Frequently Asked Questions
Can this skill search PubMed?
Yes. It includes PubMed E-utilities guidance and a script for searching and exporting citation metadata.
Can it search Google Scholar?
Yes. It includes a Google Scholar workflow using the scholarly Python package.
Does it create BibTeX entries?
Yes. It can convert DOI, PMID, arXiv, and URL identifiers into BibTeX-style citation entries.
Does it validate existing references?
Yes. It checks required fields, years, DOI format, duplicate keys, duplicate DOIs, and optional DOI resolution.
Does it require API keys?
Most features work without API keys. NCBI keys are optional and improve PubMed rate limits.
What should users review before running scripts?
Users should review network destinations, output file paths, API key handling, and provider rate limits.
Developer Details
Author
K-Dense-AILicense
MIT License
Skillstore revision
r1
Version notice
The author did not declare a version.
Ref
26421118b848d9f1efc0aa169d8a7a9e7e0a877e
Maintenance freshness
7/20/2026
Usage
31 downloads · 263 views
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