awesome-reproducible-research

Pragmatic RR for Analysis, Dissemination and Publication

Roger Peng et al JHU. Very popular course.

John Quacken et al Harvard

Reproducible Research in R workshop tutorial

An open science and reproducible research course targeted at organismal ecologists

Transparent, Open, and Reproducible Research Practices in the Social and Behavioral Sciences

lightweight audit trail for research projects: records runs, checks for stale outputs, and flags claims downstream of changed sources via multi-hop change propagation (Python and R)

audits OHLCV integrity and causal trade timing for reproducible quantitative backtests

a lightweight, "black box" flight recorder for bioinformatics experiments

validation for reproducible trade ledgers

Python primitives for causal signal-to-execution backtests

Checks that each version label in a git repo maps to exactly one code state across its tags, so a cited version (archived on Zenodo with a DOI) is unambiguous

Benchmarks are a related aspect of robustness testing

Everything related to the Docker containerization system

Jupyter projects, libraries and resources

Resources, data, tools, and scholarship

So many pipelines frameworks

A topic-centric list of HQ open datasets

BCO specs

Certification Agency for Scientific Code and Data. Issues reproducibility certificates.

community for checking executability of scientific preprints and papers

Framework for Open and Reproducible Research Training advancing research transparency, reproducibility, rigor, and ethics through pedagogical reform and meta-scientific research

online platform designed to collect and share information on the provenance and availability of the data for all articles co-authored by Francesca Gino

660 biomedical ontologies

standards, databases, and policies

checks whether a cited paper has been retracted, corrected, or flagged with an expression of concern, reading both publisher-asserted Crossref metadata and the Retraction Watch records Crossref backfills (which catch retractions publishers never recorded); ships as a Python library/CLI, an MCP server, and a GitHub Action so a bibliography can be checked in CI, no API key

free tool that flags fabricated or hallucinated references by verifying whether each cited work actually exists across 11+ scholarly databases; also generates and formats citations in 40+ styles, no sign-up

local-first tool that checks whether each manuscript claim is supported by its cited source, with Zotero integration and blinded human-first rating records

MCP server that grounds AI coding agents in full-text peer-reviewed papers, returning a verbatim supporting quote for every claim it verifies, so a generated citation can be checked against its source instead of trusted

SciScore methods sections for a variety of rigor criteria and analyzes sentences that contain research resources (antibodies, cell lines, plasmids and software tools) and determines how uniquely identifiable that resource is based off of the provided metadata.

Citation statement AI for discovering and evaluating scientific articles

A gallery of cloud-based containers with reproducible analyses

Gallery of interesting Jupyter notebooks

Code related to Neuroimaging Analysis Replication and Prediction Study

ML papers with code

12M+ DOIs registered for 46 allocators. Offers APIs and a metadata schema.

curated, metadata-centric, focused on articles associated with published artices, $120 submission fee (various waivers available)

20 GB of free private space, unlimited public space, >2M articles, >5k projects

Allows embargoed, restricted access, metadata support. 50GB limit.