155 Open source projects that are alternatives of or similar to reana

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

Monitor computational workflows in real time

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

Creating virtual environments for R.

WDL and CWL compiler for the DNAnexus platform

A toolbox for writing Sweave or other LaTeX-based papers and reports and to prettify the output of various estimated models.

A minimal example data analysis project with the targets R package

📦 Create a package or compendium structure

IMS Machine Learning Lab publications.

Reproducible Research with Rmarkdown: data management, analysis, and reporting all-in-one

A robust, extensible metagenomics pipeline

Android application to participate in experiment crowdsourcing (such as workload crowd-benchmarking and crowd-tuning) using Collective Knowledge Framework and open repositories of knowledge:

A setup script to generate ITK Python Wheels

Short course on the targets R package

Materials related to events I might attend, and to talks I am giving

Package an R workspace and all dependencies as a Docker container

Rmarkdown templates for reproducible science

ReproZip is a tool that simplifies the process of creating reproducible experiments from command-line executions, a frequently-used common denominator in computational science.

Keeping track of activities around research data

Ten Simple Rules for Writing and Sharing Computational Analyses in Jupyter Notebooks

A builder for LaTeX, knitr, literate Agda, literate Haskell and Pweave that automatically builds dependencies.

Generate custom Docker and Singularity images, and minimize existing containers

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

🐳 Containerize R Markdown documents for continuous reproducibility

VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies

PyTorch implementation of Hash Embeddings (NIPS 2017). Submission to the NIPS Implementation Challenge.

Fully reproducible, open source scientific articles in LaTeX.

An R package for data screening

🔬 Empirical CLI

project page for creating a guide to reproducible research

A Deep Learning Approach to Ultrasound Image Recovery

Collection of popular and reproducible image denoising works.

Code and data belonging to our CSCW 2018 paper: "Endorsements on Social Media: An Empirical Study of Affiliate Marketing Disclosures on YouTube and Pinterest".

A curated list of reproducible research case studies, projects, tutorials, and media

Our VM/Docker sharing infrastructure and management component

A DSL for data-driven computational pipelines

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

An R-focused pipeline toolkit for reproducibility and high-performance computing

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

awesome open list of pointers about open science for software and computational science

Create cwl workflows by writing a simple Python script

R package to interface with OpenML

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

Express parametrable, composable and portable data pipelines

Papers with code for single cell related papers

Example workflows for the drake R package

[Experimental] Workflow Definition Language (WDL) to CWL

Cookbook examples for the Insight Toolkit documented with Sphinx

Reproducible Self-Publishing - Demo Publications in the Most Common Formats

Website for NA-MIC Project Weeks

Platform for integrating genomic analysis with Jupyter Notebooks.

Shared artifacts in the Collective Knowledge Format as a proof-of-concept to reproduce our recent Collective Mind- and Collective Knowledge-related papers

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

The GenePattern Server web application

A language server for Common Workflow Language

A quick start project for polyaxon

Collective Knowledge web extension to browse CK repositories, visualize interactive graphs and articles, render CK-based websites, implement simple web services with JSON API (for example to crowdsource experiments or unify access to DNN). Demos of interactive articles, graphs and crowdsourced experiments:

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

pytask is a workflow management system which facilitates reproducible data analyses.

Deploy a BinderHub from scratch on Microsoft Azure