amber-codon-scanner

v0.1.1 suspicious
4.0
Medium Risk

Scan archaeal DNA sequences for UAG amber codons and classify them as pyrrolysine-coding or stop

🤖 AI Analysis

Final verdict: SUSPICIOUS

The package exhibits low technical risks but raises concerns due to its metadata, including a lack of maintainer history and minimal community engagement.

  • Lack of maintainer history
  • New repository with no community engagement
Per-check LLM notes
  • Network: No network calls detected, which is normal unless the package requires online resources.
  • Shell: No shell execution patterns detected, indicating no direct system command execution.
  • Obfuscation: No obfuscation patterns detected, indicating low risk.
  • Credentials: No credential harvesting patterns detected, indicating low risk.
  • Metadata: The package shows several red flags including a lack of maintainer history, a new repository with no community engagement, and an author with limited information.

📦 Package Quality Overall: Low (4.6/10)

✦ High Test Suite 9.0

Test suite present — 1 test file(s) found

  • Test runner config found: pyproject.toml
  • 1 test file(s) detected (e.g. test_scanner.py)
◈ Medium Documentation 5.0

Some documentation present

  • Detailed PyPI description (5963 chars)
○ Low Contributing Guide 2.0

No contributing guide or governance files found

  • No CONTRIBUTING, CODE_OF_CONDUCT, or governance files found
◈ Medium Type Annotations 5.0

Partial type annotation coverage

  • 13 type-annotated function signatures detected in source
○ Low Multiple Contributors 2.0

Single-author or unverifiable project

  • 1 unique contributor(s) across 13 commits in CameronCat/amber-codon-scanner
  • Single author with few commits — possibly a personal or throwaway project

🔬 Heuristic Checks

✓ Outbound Network Calls

No suspicious network call patterns found

✓ Code Obfuscation

No obfuscation patterns detected

✓ Shell / Subprocess Execution

No shell execution patterns detected

✓ Credential Harvesting

No credential harvesting patterns detected

✓ Typosquatting

No typosquatting candidates detected

✓ Registered Email Domain

Email domain looks legitimate: yahoo.com>

✓ Suspicious Page Links

All external links appear legitimate

⚠ Git Repository History score 2.5

Git history flags: Repository has zero stars and zero forks

  • Repository has zero stars and zero forks
⚠ Maintainer History score 8.0

4 maintainer concern(s) found

  • Only one version has ever been released — brand new package
  • Package is very new: uploaded 2 day(s) ago
  • Author name is missing or very short
  • Author "" appears to have only 1 package on PyPI (new or inactive account)
✓ Known CVE Vulnerabilities

No known vulnerabilities found in OSV database.

💡 AI App Starter Prompt

Use this prompt to build a project with amber-codon-scanner 
Create a Python-based bioinformatics tool named 'AmberCodonAnalyzer' using the 'amber-codon-scanner' package. This tool will allow researchers to upload archaeal DNA sequences and analyze them for UAG amber codons, classifying each occurrence as either a stop codon or a codon for the rare amino acid pyrrolysine. The application should have a user-friendly command-line interface and include the following features:

1. Input Validation: Ensure users input valid DNA sequences in FASTA format.
2. Real-time Analysis: Display progress updates during analysis.
3. Detailed Report Generation: After analysis, generate a report detailing the number of UAG codons found, their positions within the sequence, and whether they are classified as stop codons or pyrrolysine codons.
4. Customization Options: Allow users to choose between strict and relaxed classification modes based on specific research needs.
5. Error Handling: Gracefully handle any errors, such as invalid input formats or unexpected issues during analysis.
6. Integration of 'amber-codon-scanner': Utilize the 'amber-codon-scanner' package to perform the core analysis tasks, ensuring accurate identification and classification of UAG codons.
7. Export Functionality: Provide the option to export the detailed analysis report in both PDF and CSV formats for further study.
8. Documentation: Include comprehensive documentation explaining how to install, use, and customize 'AmberCodonAnalyzer'.

Your task is to design and implement this tool from scratch, focusing on making it accessible and useful for researchers studying archaeal genetics.