Ecosyste.ms: Awesome
An open API service indexing awesome lists of open source software.
https://github.com/NVIDIA/framework-reproducibility
Providing reproducibility in deep learning frameworks
atomics d9m deep-learning determinism deterministic-ops frameworks fwr13y gpu-determinism gpu-support ngc noise noise-reduction pytorch r13y reproducibility seed seeder tensorflow variance-reduction
Last synced: 03 Jul 2024
https://github.com/glotzerlab/signac
Manage large and heterogeneous data spaces on the file system.
data data-management database hacktoberfest reproducibility
Last synced: 03 Jul 2024
https://github.com/VIDA-NYU/reprozip
ReproZip is a tool that simplifies the process of creating reproducible experiments from command-line executions, a frequently-used common denominator in computational science.
archiving computational-science docker hacktoberfest linux nyu ptrace python reproducibility reproducible-research reproducible-science reprounzip reprozip science scientific-computing vagrant
Last synced: 02 Jul 2024
https://github.com/MLReef/mlreef
The collaboration workspace for Machine Learning
artificial-intelligence data-science deep-learning deeplearning machine-learning machine-learning-algorithms mlops mlops-environment models mxnet pytorch reproducibility tensorflow
Last synced: 29 Jun 2024
https://github.com/MatthewCroughan/nixcfg
My nix configuration(s), using flakes. It's my laptop, it's my servers, it's my everything, in code.
dotfiles flakes infrastructure-as-code nix nixos reproducibility
Last synced: 27 Jun 2024
http://ropensci.github.io/reproducibility-guide
:no_entry: ARCHIVED :no_entry:
reproducibility reproducibility-guide reproducible-research
Last synced: 25 Jun 2024
https://github.com/catalyst-team/alchemy
Experiments logging & visualization
deep-learning experiment-track infrastructure keras machine-learning pytorch reinforcement-learning reproducibility research tensorflow
Last synced: 24 Jun 2024
https://github.com/sinhrks/daskperiment
Reproducibility for Humans: A lightweight tool to perform reproducible machine learning experiment.
dask machine-learning reproducibility
Last synced: 22 Jun 2024
https://github.com/neurogenomics/rworkflows
Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.
bioconductor containers continuous-integration cran-r docker dockerhub github-actions r reproducibility workflows
Last synced: 22 Jun 2024
https://github.com/ropensci-books/drake
The user manual for the drake R package
data-science drake high-performance-computing makefile pipeline r reproducibility reproducible-research ropensci rstats workflow
Last synced: 21 Jun 2024
https://github.com/ropensci/drake
An R-focused pipeline toolkit for reproducibility and high-performance computing
data-science drake high-performance-computing makefile peer-reviewed pipeline r r-package reproducibility reproducible-research ropensci rstats workflow
Last synced: 17 Jun 2024
https://github.com/fbrundu/py_session
Print session information
computational-biology data-science modules packages python3 reproducibility reproducible reproducible-experiments reproducible-paper reproducible-research reproducible-science session
Last synced: 17 Jun 2024
https://github.com/aaronpeikert/reproducible-research
A Reproducible Data Analysis Workflow with R Markdown, Git, Make, and Docker
containerization dependency-management literate-programming open-science r reproducibility version-management
Last synced: 16 Jun 2024
https://github.com/jamesmenetrey/unine-twine
TWINE: An Embedded Trusted Runtime for WebAssembly. This is the repository that contains the source code of Twine and the related benchmarks.
benchmarks paper reproducibility sgx twine webassembly
Last synced: 15 Jun 2024
https://github.com/DavHau/mach-nix
Create highly reproducible python environments
mach-nix nix nix-expression nixos nixpkgs python python-deps python-environment python-packages reproducibility
Last synced: 14 Jun 2024
https://github.com/henripal/labnotebook
LabNotebook is a tool that allows you to flexibly monitor, record, save, and query all your machine learning experiments.
experiment-manager experimental-data machine-learning postgres postgresql python reproducibility reproducible-research vuejs webapp
Last synced: 14 Jun 2024
https://github.com/the-nix-way/dev-templates
Dev environments for numerous languages based on Nix flakes [maintainer=@lucperkins]
Last synced: 11 Jun 2024
https://github.com/sgibson91/binderhub-deploy
Deploy a BinderHub from scratch on Microsoft Azure
azure binder binderhub cloud docker hut23 reproducibility reproducible-research
Last synced: 10 Jun 2024
https://github.com/HenrikBengtsson/R.rsp
:page_facing_up: R package: Dynamic generation of scientific reports
cran document markup package r report reproducibility science
Last synced: 10 Jun 2024
https://github.com/rostools/prodigenr
Project directory generator R package
cran devtools open-science open-source project-management reproducibility reproducible-research reproducible-science rstats rstudio usethis
Last synced: 10 Jun 2024
https://github.com/vh-d/Rflow
Rflow is a general-purpose workflow management framework for R
data-processing database dataflow etl etl-framework r reproducibility rlang rstats rstats-package workflow-management
Last synced: 10 Jun 2024
https://github.com/baumer-lab/fertile
creating optimal conditions for reproducibility
r reproducibility reproducible-research tidyverse workflow
Last synced: 10 Jun 2024
https://github.com/dgkf/scriptgloss
dynamically reconstruct static code for shiny outputs
r reproducibility shiny static-code-analysis
Last synced: 10 Jun 2024
https://github.com/rubenarslan/repro_web_stack
The stack I use to make reproducible reports of my statistical analyses
knitr markdown r reproducibility reproducible-research reproducible-science rmarkdown statistics zenodo
Last synced: 10 Jun 2024
https://github.com/jdblischak/reproducible-research-ctv
**Archived** CRAN Task View: Reproducible Research
cran r reproducibility reproducible-research rstats task-view
Last synced: 10 Jun 2024
https://github.com/the-Hull/datacleanr
Interactive and Reproducible Data Cleaning
annotation-tool data-cleaning outlier-detection outlier-removal reproducibility
Last synced: 10 Jun 2024
https://github.com/data-and-visualization/git-tutorial
This hands-on workshop on reproducibility covers topics such as how to use git with RStudio and Duke's GitLab
git gitlab reproducibility rstudio workshops
Last synced: 10 Jun 2024
https://github.com/jasenfinch/projecttemplates
R project templates for reproducible research and analyses
r reproducibility reproducible-research reproducible-science research-project research-tool
Last synced: 10 Jun 2024
https://github.com/testlnord/rdstemplate
Reproducible Data Science RStudio Project Template
data-science r reproducibility reproducible-research rstudio template
Last synced: 10 Jun 2024
https://github.com/holmesjoli/utilsR
R utility functions
r reproducibility reproducible-analysis reproducible-research reproducible-workflows
Last synced: 10 Jun 2024
https://github.com/um-dang/literate-programming-r-markdown
Creating reproducible reports using R Markdown
literate-programming reproducibility rmarkdown workshop
Last synced: 10 Jun 2024
https://github.com/holmesjoli/archiveR
An R package for data archiving and linking with code
archive git r reproducibility reproducible-analysis reproducible-research reproducible-workflows
Last synced: 10 Jun 2024
https://github.com/codecheckers/codecheck
R package assistant for conducting a CODECHECK
codecheck r r-package reproducibility rstats
Last synced: 10 Jun 2024
https://github.com/philipdarke/reproducible-actuarial-work
Reproducible data science techniques in actuarial work
Last synced: 10 Jun 2024
https://github.com/ropensci/stantargets
Reproducible Bayesian data analysis pipelines with targets and cmdstanr
bayesian high-performance-computing make r r-targetopia reproducibility rstats rstats-package stan statistics targets
Last synced: 10 Jun 2024
https://github.com/ropensci/targets
Function-oriented Make-like declarative workflows for R
data-science high-performance-computing make peer-reviewed pipeline r r-package r-targetopia reproducibility reproducible-research rstats targets workflow
Last synced: 09 Jun 2024
https://github.com/polydawn/repeatr
Repeatr: Reproducible, hermetic Computation. Provision containers from Content-Addressable snapshots; run using familiar containers (e.g. runc); store outputs in Content-Addressable form too! JSON API; connect your own pipelines! (Or, use github.com/polydawn/stellar for pipelines!)
containers distributed formula reproducibility reproducible-builds snapshots timeless timeless-stack
Last synced: 09 Jun 2024
https://github.com/catalyst-team/segmentation
Catalyst.Segmentation
augmentation catalyst deep-learning docker image-processing image-segmentation jaccard machine-learning pipeline python pytorch reproducibility segmentation segmentation-pipeline
Last synced: 07 Jun 2024
https://github.com/catalyst-team/classification
Catalyst.Classification
augmentation catalyst classification classification-pipeline deep-learning docker focal-loss image-classification image-processing machine-learning pipeline python pytorch reproducibility
Last synced: 07 Jun 2024
https://github.com/wlandau/targets-shiny
Example Shiny app containing a targets pipeline.
high-performance-computing make pipeline r reproducibility reproducible-research shiny targets workflow
Last synced: 04 Jun 2024
https://github.com/wlandau/targets-tutorial
Short course on the targets R package
data-science make pipeline r r-package reproducibility reproducible-research rstats targets workflow
Last synced: 04 Jun 2024
https://github.com/jimbrig/buildtools
Tools for isolating, detecting dependencies, scaffolding, and building deployable, reproducible developer environments in R.
build-tool configuration containers deployment docker environment r-package reproducibility rstats shiny-apps
Last synced: 04 Jun 2024
https://github.com/wlandau/targets-four-minutes
Get started with the {targets} R package in four minutes
make pipeline reproducibility rstats targets
Last synced: 04 Jun 2024
https://github.com/analythium/deps
Dependency Management with roxygen-style Comments
dependencies packages reproducibility rstats
Last synced: 03 Jun 2024
https://github.com/curiousily/Reproducible-ML-with-DVC
Tutorial on experiment tracking and reproducibility for Machine Learning projects with DVC
deep-learning dvc experiment-tracking linear-regression machine-learning metrics python random-forest reproducibility scikit-learn tracking
Last synced: 02 Jun 2024
https://github.com/jvalegre/robert
Automated machine learning protocols that start from CSV databases of descriptors or SMILES and produce publication-quality results in Chemistry studies with only one command line.
automation cheminformatics machine-learning python reproducibility scikit-learn workflows
Last synced: 27 May 2024
https://github.com/jvalegre/aqme
Automated Quantum Mechanical Environments (AQME) offers transparent and reproducible workflows available for Jupyter Notebooks and command lines, including: 1) RDKit- and CREST-based conformer generation, 2) QM input file creation, 3) post-processing of QM output files, 4) generation of xTB, DFT and RDKit descriptors. https://aqme.readthedocs.io
automation cheminformatics jupyter-notebooks python quantum-chemistry reproducibility workflows
Last synced: 27 May 2024
https://github.com/mllg/batchtools
Tools for computation on batch systems
batchexperiments batchjobs cran docker-swarm high-performance-computing hpc hpc-clusters lsf openlava parallel-computing r reproducibility sge slurm torque
Last synced: 26 May 2024
https://github.com/getpopper/popper
Container-native task automation engine.
automation-engine cli containers devops docker podman reproducibility sciops singularity workflows
Last synced: 26 May 2024
https://github.com/ropensci/lightr
Import spectral data and related metadata in R
file-import r r-package reproducibility reproducible-research reproducible-science spectral-data spectroscopy
Last synced: 21 May 2024
https://rescience.github.io/ten-years/
Ten Years Reproducibility Challenge
challenge open-source reproducibility
Last synced: 21 May 2024
https://github.com/lockedata/starters
R Package 📦 for initializing projects for various R activities :nut_and_bolt:
developer-tools r r-package reproducibility rstats setup setup-tool setuptools
Last synced: 20 May 2024
https://github.com/benmarwick/researchcompendium
NOTE: This repo is archived. Please see https://github.com/benmarwick/rrtools for my current approach
compendium reproducibility reproducible-research reproducible-science
Last synced: 20 May 2024
https://github.com/odeleongt/postr
Prepare reproducible R Markdown posters
poster r reproducibility template
Last synced: 20 May 2024
https://github.com/wlandau/drake-examples
Example workflows for the drake R package
data-science drake high-performance-computing makefile pipeline r reproducibility reproducible-research ropensci rstats workflow
Last synced: 20 May 2024
https://github.com/wlandau/targets-minimal
A minimal example data analysis project with the targets R package
data-science high-performance-computing pipeline r reproducibility reproducible-research rstats statistics targets workflow
Last synced: 20 May 2024
https://github.com/wlandau/targetsketch
Sketch a pipeline of targets in an interactive web app
data-science high-performance-computing pipeline r reproducibility rstats shiny targets workflow
Last synced: 20 May 2024
https://github.com/strazto/mandrake
📖🐉- Bring reading the manual 📖 closer to your drake 🐉 workflow 🔥
data-science drake high-performance-computing makefile pipeline r r-package reproducibility reproducible-research rstats workflow
Last synced: 20 May 2024
https://github.com/ropensci/tarchetypes
Archetypes for targets and pipelines
data-science high-performance-computing peer-reviewed pipeline r r-package r-targetopia reproducibility rstats targets workflow
Last synced: 19 May 2024
https://github.com/ropensci/gittargets
Data version control for reproducible analysis pipelines in R with {targets}.
data-science data-version-control data-versioning r r-package reproducibility reproducible-research rstats targets workflow
Last synced: 19 May 2024
https://github.com/clementchadebec/benchmark_VAE
Unifying Variational Autoencoder (VAE) implementations in Pytorch (NeurIPS 2022)
benchmarking beta-vae comparison normalizing-flows pixel-cnn pytorch reproducibility reproducible-research vae vae-gan vae-implementation vae-pytorch variational-autoencoder vq-vae wasserstein-autoencoder
Last synced: 17 May 2024
https://github.com/ropensci/DataPackageR
An R package to enable reproducible data processing, packaging and sharing.
peer-reviewed r r-package reproducibility rstats
Last synced: 16 May 2024
https://github.com/PredictiveEcology/reproducible
A set of tools for R that enhance reproducibility beyond package management
r-package reproducibility reproducible-research
Last synced: 16 May 2024
https://github.com/benmarwick/rrtools
rrtools: Tools for Writing Reproducible Research in R
quarto quarto-template r reproducibility reproducible-paper reproducible-research reproducible-science research-compendium research-paper research-project research-tool
Last synced: 16 May 2024
https://github.com/matt-dray/drake-egg-rap
:duck::egg: Demo/talk: {drake} for making a reproducible analytical pipeline for a stats report
drake pipeline r reproducibility rstats uk-gov-data-science workflow
Last synced: 16 May 2024
https://github.com/understandable-machine-intelligence-lab/Quantus
Quantus is an eXplainable AI toolkit for responsible evaluation of neural network explanations
deep-learning explainable-ai interpretability machine-learning pytorch quantification-evaluation-methods reproducibility tensorflow xai
Last synced: 14 May 2024
https://github.com/AI4LIFE-GROUP/OpenXAI
OpenXAI : Towards a Transparent Evaluation of Model Explanations
benchmark explainability explainable-ai interpretability leaderboard reproducibility
Last synced: 13 May 2024
https://github.com/minerva-ml/open-solution-value-prediction
Open solution to the Santander Value Prediction Challenge :tropical_fish:
banking-applications competition data-science deep-learning education ensemble-model lightgbm machine-learning neptune open-source pipeline-framework python reproducibility reproducible-experiments santander sklearn training xgboost
Last synced: 12 May 2024
https://github.com/minerva-ml/open-solution-googleai-object-detection
Open solution to the Google AI Object Detection Challenge :maple_leaf:
challenge data-science deep-learning deep-neural-networks detection-network google-ai-challange machine-learning mask-rcnn object-detection pipeline pipeline-framework reproducibility reproducible-experiments reproducible-research retina-net
Last synced: 12 May 2024
https://github.com/minerva-ml/open-solution-home-credit
Open solution to the Home Credit Default Risk challenge :house_with_garden:
competition credit-risk credit-scoring deep-learning feature-engineering kaggle lightgbm machine-learning neptune open-source pipeline pipeline-framework python python3 python35 reproducibility reproducible-experiments xgboost
Last synced: 12 May 2024
https://github.com/minerva-ml/steppy
Lightweight, Python library for fast and reproducible experimentation :microscope:
data-science deep-learning image-processing machine-learning minimal-interface nlp open-source pipeline python python-library python3 reproducibility reproducible-research steppy steppy-library steppy-toolkit steps
Last synced: 12 May 2024
https://github.com/minerva-ml/steppy-toolkit
Curated set of transformers that make your work with steppy faster and more effective :telescope:
data-science deep-learning keras keras-models machine-learning nlp open-source pipeline pipeline-framework python python3 pytorch pytorch-models reproducibility reproducible-research steppy steppy-toolkit steps tensorflow tensorflow-models
Last synced: 12 May 2024
https://github.com/joedicastro/vps-comparison
A comparison between some VPS providers. It uses Ansible to perform a series of automated benchmark tests over the VPS servers that you specify. It allows the reproducibility of those tests by anyone that wanted to compare these results to their own. All the tests results are available in order to provide independence and transparency.
ansible cloud comparison hosting independence python reproducibility transparency vps
Last synced: 10 May 2024
https://github.com/iterative/example-get-started
Get started DVC project (NLP, random forest)
dvc example machine-learning nlp python random-forest reproducibility reproducible reproducible-research
Last synced: 09 May 2024
https://github.com/zincware/ZnTrack
Create, visualize, run & benchmark DVC pipelines in Python & Jupyter notebooks.
data-science data-version-control developer-tools dvc git machine-learning python reproducibility
Last synced: 09 May 2024
https://github.com/snakemake/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
reproducibility snakemake workflow-management
Last synced: 08 May 2024
https://github.com/leipzig/awesome-reproducible-research
A curated list of reproducible research case studies, projects, tutorials, and media
awesome awesome-list reproducibility reproducible-analysis reproducible-research reproducible-science reproducible-workflows
Last synced: 07 May 2024
https://github.com/expfactory/expfactory.github.io
reproducible container experiments
experiment-factory experiments expfactory jspsych labjs psychology reproducibility
Last synced: 07 May 2024
https://github.com/jaeyk/makereproducible
R package for making a project computationally reproducible before sharing it
here r reproducibility transparency
Last synced: 07 May 2024
https://github.com/tweag/jupyenv
Declarative and reproducible Jupyter environments - powered by Nix
jupyter jupyter-notebooks jupyterlab nix reproducibility
Last synced: 06 May 2024
https://github.com/catalyst-team/catalyst
Accelerated deep learning R&D
computer-vision deep-learning distributed-computing image-classification image-processing image-segmentation information-retrieval infrastructure machine-learning metric-learning natural-language-processing object-detection python pytorch recommender-system reinforcement-learning reproducibility research text-classification text-segmentation
Last synced: 05 May 2024
https://github.com/iterative/dvc
🦉 ML Experiments and Data Management with Git
ai collaboration data-science data-version-control developer-tools git hacktoberfest machine-learning python reproducibility
Last synced: 04 May 2024
https://github.com/BrainTwister/docker-devel-env
Fast, reproducible, and portable software development environments
clang cmake conan cuda development docker eclipse gcc jenkins nsight portability reproducibility vscode
Last synced: 04 May 2024
https://github.com/tidyverse/reprex
Render bits of R code for sharing, e.g., on GitHub or StackOverflow.
github r reproducibility rmarkdown stackoverflow
Last synced: 02 May 2024
https://github.com/ropensci/ezknitr
Avoid the typical working directory pain when using 'knitr'
knitr peer-reviewed r r-package reproducibility rmarkdown rmd rstats
Last synced: 02 May 2024
https://github.com/mlr-org/mlr3-learndrake
Template for using mlr3 with drake
drake machine-learning mlr3 r reproducibility workflow
Last synced: 01 May 2024
https://github.com/ddsjoberg/gtsummary
Presentation-Ready Data Summary and Analytic Result Tables
easy-to-use gt html5 r r-package regression-models reproducibility reproducible-research rstats statistics summary-statistics summary-tables table1 tableone
Last synced: 01 May 2024
https://github.com/IDSIA/sacred
Sacred is a tool to help you configure, organize, log and reproduce experiments developed at IDSIA.
infrastructure machine-learning mongodb python reproducibility reproducible-research reproducible-science
Last synced: 28 Apr 2024
https://github.com/rlworkgroup/garage
A toolkit for reproducible reinforcement learning research.
pytorch reproducibility rl-algorithms tensorflow
Last synced: 28 Apr 2024
https://github.com/nix-community/dream2nix
Simplified nix packaging for various programming language ecosystems [maintainer=@DavHau]
2nix dream-to-nix hacktoberfest lang2nix nix nix-community-buildbot nixos nodejs package-management reproducibility rust
Last synced: 26 Apr 2024
https://github.com/dmesquita/dvc_pipelines_and_experiments_tutorial
Building a maintainable Machine Learning pipeline using DVC
dvc dvc-for-experiment-management experiments machine-learning pipelines project-management reproducibility
Last synced: 22 Apr 2024
https://github.com/deanmarchiori/analysis-flow
Data Analysis Workflows & Reproducibility Learning Resources
data-analysis reproducibility reproducible-data-science reproducible-science tooling workflow
Last synced: 22 Apr 2024
https://github.com/greenelab/continuous_analysis
Computational reproducibility using Continuous Integration to produce verifiable end-to-end runs of scientific analysis.
continuous-integration methodology open-science reproducibility supplement
Last synced: 17 Apr 2024
https://github.com/poldrack/narps
Code related to Neuroimaging Analysis Replication and Prediction Study
Last synced: 16 Apr 2024
https://github.com/mit-ll-responsible-ai/hydra-zen
Create powerful Hydra applications without the yaml files and boilerplate code.
configurable configuration dataclasses deep-learning dynamic-configuration machine-learning machinelearning pytorch pytorch-lightning reproducibility reproducible-science scalable yaml-configuration
Last synced: 16 Apr 2024
https://github.com/toshas/torch-fidelity
High-fidelity performance metrics for generative models in PyTorch
evaluation frechet-inception-distance gan generative-model inception-score kernel-inception-distance metrics perceptual-path-length precision pytorch reproducibility reproducible-research
Last synced: 16 Apr 2024
https://github.com/jennybc/reprex
Render bits of R code for sharing, e.g., on GitHub or StackOverflow.
github r reproducibility rmarkdown stackoverflow
Last synced: 10 Apr 2024
https://github.com/kwotsin/mimicry
[CVPR 2020 Workshop] A PyTorch GAN library that reproduces research results for popular GANs.
cgan cvpr cvpr20 cvpr2020 dcgan gan gans generative-adversarial-networks generative-models infomax-gan machine-learning python pytorch reproducibility sngan sngan-projection ssgan wgan-gp
Last synced: 05 Apr 2024
