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An Introduction to prismAId

An Introduction to prismAId: Open-Source and Open Science AI for Advancing Information Extraction in Systematic Reviews - Published in JOSS (2025)

https://github.com/open-and-sustainable/prismaid

Science Score: 93.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 11 DOI reference(s) in README and JOSS metadata
  • ✓
    Academic publication links
    Links to: joss.theoj.org, zenodo.org
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ✓
    JOSS paper metadata
    Published in Journal of Open Source Software

Keywords

generative-ai open-science open-source systematic-literature-reviews

Scientific Fields

Earth and Environmental Sciences Physical Sciences - 40% confidence
Last synced: 4 months ago · JSON representation

Repository

Open Science AI Tools for Systematic, Protocol-Based Literature Reviews

Basic Info
Statistics
  • Stars: 12
  • Watchers: 1
  • Forks: 1
  • Open Issues: 5
  • Releases: 28
Topics
generative-ai open-science open-source systematic-literature-reviews
Created over 1 year ago · Last pushed 6 months ago
Metadata Files
Readme Changelog Contributing License Code of conduct Citation Security

README.md

logo prismAId

Open Science AI Tools for Systematic, Protocol-Based Literature Reviews

prismAId offers a suite of tools using generative AI models to streamline systematic reviews of scientific literature.

It provides simple-to-use, efficient, and replicable methods for analyzing research papers with no coding skills required.

GitHub Release GitHub top language Go Report Card Go Reference PyPI - Version R-universe status badge

GitHub License DOI DOI DOI

Tools Overview

prismAId offers a comprehensive set of tools for systematic literature reviews:

Tools Overview

Core Tools

  1. Download - Download papers from Zotero collections or from URL lists
  2. Convert - Convert files (PDF, DOCX, HTML) to plain text for analysis
  3. Review - Process systematic literature reviews based on TOML configurations

Access Methods

  • Command Line Interface - For users who prefer terminal-based workflows
  • Web Initializer - A browser-based setup tool for configuring reviews
  • Programming Libraries - API access through multiple languages:
    • Go (native implementation)
    • Python package
    • R package
    • Julia package

Specifications

  • Review protocol: Supports any literature review protocol with a preference for Prisma 2020, which inspired our project name.
  • Distribution: Available as:
  • Supported LLMs:
    1. OpenAI: GPT-3.5 Turbo, GPT-4 Turbo, GPT-4o, GPT-4o Mini, GPT-4.1, GPT-4.1 Mini, GPT-4.1 Nano, o1, o1 Mini, o3, o3 Mini, and o4 Mini
    2. GoogleAI: Gemini 1.0 Pro, Gemini 1.5 Pro, Gemini 1.5 Flash, Gemini 2.0 Flash, and Gemini 2.0 Flash Lite
    3. Cohere: Command, Command Light, Command R, Command R+, Command R7B, Command R (August 2024), and Command A
    4. Anthropic: Claude 3 Sonnet, Claude 3 Opus, Claude 3 Haiku, Claude 3.5 Haiku, Claude 3.5 Sonnet, Claude 3.7 sonnet, Claude 4.0 Sonnet, and Claude 4.0 Opus
    5. DeepSeek: DeepSeek Chat v3, and DeepSeek Reasoner v3
  • Output format: Data in CSV or JSON formats
  • Performance: Efficiently processes extensive datasets with minimal setup and no coding required
  • Programming Language: Core implementation in Go with bindings for Python, R, and Julia

Documentation

All information on installation, usage, and development is available at open-and-sustainable.github.io/prismaid and in the prismAId User Manual.

Credits

Authors

Riccardo Boero - ribo@nilu.no

Acknowledgments

This project was initiated with the generous support of a SIS internal project from NILU. Their support was crucial in starting this research and development effort. Further, acknowledgment is due for the research credits received from the OpenAI Researcher Access Program and the Cohere For AI Research Grant Program, both of which have significantly contributed to the advancement of this work.

License

GNU AFFERO GENERAL PUBLIC LICENSE, Version 3

license

Contributing

Contributions are welcome! Please follow guidelines at open-and-sustainable.github.io/prismaid/research-development.html.

Citation

Boero, R. (2024). prismAId - Open Science AI Tools for Systematic, Protocol-Based Literature Reviews. Zenodo. DOI: 10.5281/zenodo.11210796

Owner

  • Name: Open and Sustainable
  • Login: Open-and-Sustainable
  • Kind: organization

JOSS Publication

An Introduction to prismAId: Open-Source and Open Science AI for Advancing Information Extraction in Systematic Reviews
Published
April 11, 2025
DOI
Volume 10, Issue 108, Page 7616
Authors
Riccardo Boero ORCID
NILU, the Climate and Environmental Research Institute
Editor
Chris Vernon ORCID
Tags
systematic literature review generative AI Open Science
View PDF Review Thread Software Archive

GitHub Events

Total
  • Create event: 97
  • Release event: 15
  • Issues event: 57
  • Watch event: 9
  • Delete event: 77
  • Issue comment event: 71
  • Push event: 445
  • Pull request event: 129
Last Year
  • Create event: 97
  • Release event: 15
  • Issues event: 57
  • Watch event: 9
  • Delete event: 77
  • Issue comment event: 71
  • Push event: 445
  • Pull request event: 129

Issues and Pull Requests

Last synced: 4 months ago

All Time
  • Total issues: 13
  • Total pull requests: 46
  • Average time to close issues: 18 days
  • Average time to close pull requests: about 19 hours
  • Total issue authors: 2
  • Total pull request authors: 2
  • Average comments per issue: 0.46
  • Average comments per pull request: 0.22
  • Merged pull requests: 39
  • Bot issues: 0
  • Bot pull requests: 1
Past Year
  • Issues: 13
  • Pull requests: 46
  • Average time to close issues: 18 days
  • Average time to close pull requests: about 19 hours
  • Issue authors: 2
  • Pull request authors: 2
  • Average comments per issue: 0.46
  • Average comments per pull request: 0.22
  • Merged pull requests: 39
  • Bot issues: 0
  • Bot pull requests: 1
View more stats
Top Authors
Issue Authors
  • ricboer0 (48)
  • warys (1)
Pull Request Authors
  • ricboer0 (83)
  • dependabot[bot] (1)
Top Labels
Issue Labels
enhancement (30) size: 10 (11) size: 3 (10) bug (10) documentation (9) size: 30 (8) size: 1 (7) size: 5 (3) dependencies (1) go (1)
Pull Request Labels
enhancement (5) size: 5 (3) good first issue (2) dependencies (1) go (1) size: 10 (1) size: 1 (1)

Packages

  • Total packages: 6
  • Total downloads:
    • julia 1 total
    • pypi 22 last-month
  • Total dependent packages: 0
    (may contain duplicates)
  • Total dependent repositories: 0
    (may contain duplicates)
  • Total versions: 123
  • Total maintainers: 1
proxy.golang.org: github.com/open-and-sustainable/prismaId
  • Versions: 25
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent packages count: 6.1%
Average: 6.3%
Dependent repos count: 6.5%
Last synced: 4 months ago
proxy.golang.org: github.com/Open-and-Sustainable/prismaid

Package prismaid defines the core logic for managing and executing workflows within the application. It handles the review processes, error handling, and the orchestration of different modules to achieve a cohesive execution flow.

  • Versions: 26
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent packages count: 6.1%
Average: 6.3%
Dependent repos count: 6.5%
Last synced: 4 months ago
proxy.golang.org: github.com/Open-and-Sustainable/prismAId

Package prismAId defines the core logic for managing and executing workflows within the application. It handles the review processes, error handling, and the orchestration of different modules to achieve a cohesive execution flow.

  • Versions: 26
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent packages count: 6.1%
Average: 6.3%
Dependent repos count: 6.5%
Last synced: 4 months ago
proxy.golang.org: github.com/open-and-sustainable/prismaid

Package prismaid provides a unified interface to the prismAId systematic literature review toolkit. It exposes core functionality including document conversion, PDF retrieval from Zotero, URL-based file downloads, and automated literature review processes. This package serves as both the foundation for Go applications and as the backend for multi-language bindings through its shared library exports, supporting Python, R, and Julia. All functionality can be accessed programmatically or through compiled command-line executables.

  • Versions: 26
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent packages count: 6.1%
Average: 6.3%
Dependent repos count: 6.5%
Last synced: 4 months ago
juliahub.com: PrismAId

Open Science AI Tools for Systematic, Protocol-Based Literature Reviews

  • Versions: 7
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 1 Total
Rankings
Dependent repos count: 3.2%
Average: 9.8%
Dependent packages count: 16.3%
Last synced: 4 months ago
pypi.org: prismaid

PrismAId library package

  • Versions: 13
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 22 Last month
Rankings
Dependent packages count: 10.1%
Average: 33.6%
Dependent repos count: 57.1%
Maintainers (1)
ricboero
Last synced: 4 months ago

Dependencies

go.mod go
  • github.com/BurntSushi/toml v1.3.2
  • github.com/dlclark/regexp2 v1.10.0
  • github.com/google/uuid v1.3.0
  • github.com/pkoukk/tiktoken-go v0.1.6
  • github.com/sashabaranov/go-openai v1.23.0
  • github.com/shopspring/decimal v1.4.0
go.sum go
  • github.com/BurntSushi/toml v1.3.2
  • github.com/davecgh/go-spew v1.1.1
  • github.com/dlclark/regexp2 v1.10.0
  • github.com/google/uuid v1.3.0
  • github.com/pkoukk/tiktoken-go v0.1.6
  • github.com/pmezard/go-difflib v1.0.0
  • github.com/sashabaranov/go-openai v1.23.0
  • github.com/shopspring/decimal v1.4.0
  • github.com/stretchr/testify v1.8.2
  • gopkg.in/yaml.v3 v3.0.1
.github/workflows/build_binaries.yml actions
  • actions/checkout v3 composite
  • actions/setup-go v4 composite
.github/workflows/build_shared.yml actions
  • actions/checkout v4 composite
  • actions/download-artifact v4 composite
  • actions/setup-go v5 composite
  • actions/upload-artifact v4 composite
.github/workflows/go.yml actions
  • actions/cache v3 composite
  • actions/checkout v3 composite
  • actions/setup-go v4 composite
python/pyproject.toml pypi
.github/workflows/rel_to_matrix.yml actions
r-package/DESCRIPTION cran