93 Open source projects that are alternatives of or similar to Snakemake

Capture all information throughout your model's development in a reproducible way and tie results directly to the model code!

Data Analysis Workflows & Reproducibility Learning Resources

The Organization lesson for the Reproducible Science Curriculum

my Linux Configuration

My entry for ICLR 2018 Reproducibility Challenge for paper Synthesizing robust adversarial examples https://openreview.net/pdf?id=BJDH5M-AW

A set of tools for R that enhance reproducibility beyond package management

The collaboration workspace for Machine Learning

Sacred is a tool to help you configure, organize, log and reproduce experiments developed at IDSIA.

Coding Standards for the USC Biostats group

restlessdata.com.au/ggtrack

Open Science, Open Data, Open Source

declarative and reproducible Jupyter environments - powered by Nix

Examples and demos for ReproZip

A collection of portable workflows, automation recipes and components for MLOps in a unified CK format. Note that this repository is outdated - please check the 2nd generation of the CK workflow automation meta-framework with portable MLOps and DevOps components here:

Collective Knowledge framework (CK) helps to organize black-box research software as a database of reusable components and micro-services with common APIs, automation actions and extensible meta descriptions. See real-world use cases from Arm, General Motors, ACM, Raspberry Pi foundation and others:

Experiments logging & visualization

Unofficial Implementation of ECANets (CVPR 2020) for the Reproducibility Challenge 2020.

Prepare reproducible R Markdown posters

[CVPR 2020 Workshop] A PyTorch GAN library that reproduces research results for popular GANs.

🔨 Gitian Building made simpler on any Windows Debian/Ubuntu MacOS with Vagrant, lxc, and virtualbox

Template for using mlr3 with drake

Unifying Variational Autoencoder (VAE) implementations in Pytorch (NeurIPS 2022)

ML project template facilitating both research and production phases.

Short course on the targets R package

Reproducible Bayesian data analysis pipelines with targets and cmdstanr

Open solution to the Google AI Object Detection Challenge 🍁

Create highly reproducible python environments

Execute and document benchmarks reproducibly.

A minimal example data analysis project with the targets R package

Open solution to the Home Credit Default Risk challenge 🏡

Reproducible Science: what, why, how

Reproducible Data Science in Python (SciPy 2019 Tutorial)

My nix configuration(s), using flakes. It's my laptop, it's my servers, it's my everything, in code.

rrtools: Tools for Writing Reproducible Research in R

PyTorch Lightning + Hydra. A very user-friendly template for rapid and reproducible ML experimentation with best practices. ⚡🔥⚡

🐶 🕵️ Great Dane turned Python environment detective

ukbREST: efficient and streamlined data access for reproducible research of large biobanks

Open source production model management tool for data scientists

Portable automation meta-framework to manage, describe, connect and reuse any artifacts, scripts, tools and workflows on any platform with any software and hardware in a non-intrusive way and with minimal effort. Try it using this tutorial to modularize and automate ML Systems benchmarking from the Student Cluster Competition at SC'22:

Synchronize your working directory efficiently to a remote place without committing the changes.

Reproducibility for Humans: A lightweight tool to perform reproducible machine learning experiment.

Render bits of R code for sharing, e.g., on GitHub or StackOverflow.

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

Ten Years Reproducibility Challenge

Deploy a BinderHub from scratch on Microsoft Azure

Function-oriented Make-like declarative workflows for R

⛔ ARCHIVED ⛔

NOTE: This repo is archived. Please see https://github.com/benmarwick/rrtools for my current approach

Pythonic functions for creating and enhancing Hydra applications

Presentation-Ready Data Summary and Analytic Result Tables

Code related to Neuroimaging Analysis Replication and Prediction Study

Catalyst.Classification

creating optimal conditions for reproducibility

Software Papers as Software Modules: Towards a Culture of Reusable Results

Short course on reproducible science: what, why, how

This is the repository of our article published in RecSys 2019 "Are We Really Making Much Progress? A Worrying Analysis of Recent Neural Recommendation Approaches" and of several follow-up studies.

LabNotebook is a tool that allows you to flexibly monitor, record, save, and query all your machine learning experiments.

Workflow Description Language - Specification and Implementations

an initiative to provide infrastructure for reproducible workflows around open data

Purely functional build system and package manager