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Projects in Awesome Lists tagged with reproducible-research

A curated list of projects in awesome lists tagged with reproducible-research .

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: 16 Dec 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: 09 Nov 2024

https://github.com/cloud-cv/evalai

:cloud: :rocket: :bar_chart: :chart_with_upwards_trend: Evaluating state of the art in AI

ai ai-challenges angular7 angularjs artificial-intelligence challenge django docker evalai evaluation leaderboard machine-learning python reproducibility reproducible-research

Last synced: 18 Dec 2024

https://github.com/Cloud-CV/EvalAI

:cloud: :rocket: :bar_chart: :chart_with_upwards_trend: Evaluating state of the art in AI

ai ai-challenges angular7 angularjs artificial-intelligence challenge django docker evalai evaluation leaderboard machine-learning python reproducibility reproducible-research

Last synced: 30 Oct 2024

https://github.com/insightsoftwareconsortium/itk

Insight Toolkit (ITK) -- Official Repository. ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions.

cpp hacktoberfest image-analysis insight-toolkit itk medical-imaging numfocus open-science open-source python reproducible-research scientific-computing

Last synced: 16 Dec 2024

https://github.com/InsightSoftwareConsortium/ITK

Insight Toolkit (ITK) -- Official Repository. ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions.

cpp hacktoberfest image-analysis insight-toolkit itk medical-imaging numfocus open-science open-source python reproducible-research scientific-computing

Last synced: 26 Oct 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 Dec 2024

https://github.com/junolab/weave.jl

Scientific reports/literate programming for Julia

julia literate-programming reproducible-research scientific-reports scientific-workflows

Last synced: 19 Dec 2024

https://github.com/JunoLab/Weave.jl

Scientific reports/literate programming for Julia

julia literate-programming reproducible-research scientific-reports scientific-workflows

Last synced: 06 Nov 2024

https://github.com/iot-salzburg/gpu-jupyter

GPU-Jupyter: Leverage the flexibility of Jupyterlab through the power of your NVIDIA GPU to run your code from Tensorflow and Pytorch in collaborative notebooks on the GPU.

reproducible-research

Last synced: 06 Nov 2024

https://github.com/crsh/papaja

papaja (Preparing APA Journal Articles) is an R package that provides document formats to produce complete APA manuscripts from RMarkdown-files (PDF and Word documents) and helper functions that facilitate reporting statistics, tables, and plots.

apa apa-guidelines journal manuscript psychology r r-package reproducible-paper reproducible-research rmarkdown

Last synced: 20 Dec 2024

https://github.com/insightsoftwareconsortium/itkwidgets

An elegant Python interface for visualization on the web platform to interactively generate insights into multidimensional images, point sets, and geometry.

image-analysis imaging insight-toolkit itk jupyter jupyter-widget jupyterlab-extension kitware medical-visualization meshes open-science open-source point-cloud python reproducible-research scientific-computing scientific-visualization

Last synced: 15 Dec 2024

https://github.com/InsightSoftwareConsortium/itkwidgets

An elegant Python interface for visualization on the web platform to interactively generate insights into multidimensional images, point sets, and geometry.

image-analysis imaging insight-toolkit itk jupyter jupyter-widget jupyterlab-extension kitware medical-visualization meshes open-science open-source point-cloud python reproducible-research scientific-computing scientific-visualization

Last synced: 25 Oct 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: 09 Nov 2024

https://github.com/mmasana/facil

Framework for Analysis of Class-Incremental Learning with 12 state-of-the-art methods and 3 baselines.

continual-learning deep-learning framework incremental-learning lifelong-learning machine-learning reproducible-research survey

Last synced: 21 Dec 2024

https://github.com/Audio-WestlakeU/FullSubNet

PyTorch implementation of "FullSubNet: A Full-Band and Sub-Band Fusion Model for Real-Time Single-Channel Speech Enhancement."

audio band denoising full-band narrow-band noise-reduction paper pretrained-model pytorch reproducible-research single-channel speech speech-enhancement speech-processing speech-separation sub-band

Last synced: 22 Nov 2024

https://github.com/mmasana/FACIL

Framework for Analysis of Class-Incremental Learning with 12 state-of-the-art methods and 3 baselines.

continual-learning deep-learning framework incremental-learning lifelong-learning machine-learning reproducible-research survey

Last synced: 15 Nov 2024

https://github.com/recipy/recipy

Effortless method to record provenance in Python

database provenance python recipy reproducible-research science

Last synced: 14 Nov 2024

https://github.com/mpastell/Pweave

Pweave is a scientific report generator and a literate programming tool for Python. It can capture the results and plots from data analysis and works well with numpy, scipy and matplotlib.

jupyter python python3 reproducible-research scientific-reports

Last synced: 02 Nov 2024

https://github.com/mpastell/pweave

Pweave is a scientific report generator and a literate programming tool for Python. It can capture the results and plots from data analysis and works well with numpy, scipy and matplotlib.

jupyter python python3 reproducible-research scientific-reports

Last synced: 15 Dec 2024

https://github.com/nf-core/sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

annotation bioinformatics cancer conda containers gatk4 genomics germline next-generation-sequencing nextflow nf-core pipeline pre-processing reproducible-research somatic target-panels variant-calling whole-exome-sequencing whole-genome-sequencing workflow

Last synced: 07 Nov 2024

https://github.com/orfeotoolbox/otb

Github mirror of https://gitlab.orfeo-toolbox.org/orfeotoolbox/otb

cpp14 image-processing open-science open-source orfeotoolbox osgeo otb remote-sensing reproducible-research

Last synced: 21 Dec 2024

https://github.com/hughjonesd/huxtable

An R package to create styled tables in multiple output formats, with a friendly, modern interface.

cran html huxtable latex microsoft-word powerpoint r reproducible-research tables

Last synced: 20 Dec 2024

https://github.com/ReproNim/neurodocker

Generate custom Docker and Singularity images, and minimize existing containers

apptainer containers docker dockerfile linux neuroscience nipype reproducible-research science singularity-container

Last synced: 12 Nov 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: 17 Dec 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: 30 Oct 2024

https://github.com/Rapporter/pander

An R Pandoc Writer: Convert arbitrary R objects into markdown

literate-programming markdown pandoc pandoc-markdown r reproducible-research rmarkdown

Last synced: 22 Nov 2024

https://github.com/o2r-project/containerit

Package an R workspace and all dependencies as a Docker container

docker dockerfile r reproducible-research reproducible-science

Last synced: 25 Oct 2024

https://github.com/jupyter-guide/ten-rules-jupyter

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

binder jupyter jupyter-lab jupyter-notebook machine-learning reproducible-research

Last synced: 04 Nov 2024

https://github.com/ClaudioZandonella/trackdown

R package for collaborative writing and editing of R Markdown (or Sweave) documents in Google Docs.

markdown r r-package reproducible-research rstats

Last synced: 27 Oct 2024

https://github.com/yanndubs/hash-embeddings

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

embeddings hashing nips nips-challenge nlp pytorch reproducible-research word-embeddings

Last synced: 27 Oct 2024

https://github.com/pipefunc/pipefunc

Lightweight function pipeline (DAG) creation in pure Python for scientific workflows 🕸️🧪

dag hpc parallel-computing pipeline-framework pipelines reproducible-research slurm workflow-engine

Last synced: 21 Dec 2024

https://github.com/nanxstats/liftr

🐳 Containerize R Markdown documents for continuous reproducibility

containerization docker dynamic-documents knitr liftr reproducible-research reproducible-science rmarkdown statistical-computing

Last synced: 21 Dec 2024

https://github.com/htm-community/htm.core

Actively developed Hierarchical Temporal Memory (HTM) community fork (continuation) of NuPIC. Implementation for C++ and Python

ai anomaly-detection cortical-learning cpp hierarchical-temporal-memory htm neural-networks neuromorphic-computing neuroscience neuroscience-inspired-ai nupic prediction reproducible-research sparse-distributed-memory

Last synced: 20 Nov 2024

https://github.com/vanheeringen-lab/seq2science

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

atac-seq bioinformatics bioinformatics-pipeline chip-seq fastq ngs pipeline reproducible-research rna-seq snakemake sra workflows

Last synced: 19 Dec 2024

https://github.com/ekstroem/dataMaid

An R package for data screening

data-cleaning data-screening reproducible-research

Last synced: 13 Nov 2024

https://github.com/ekstroem/datamaid

An R package for data screening

data-cleaning data-screening reproducible-research

Last synced: 03 Dec 2024

https://github.com/ropensci/osfr

R interface to the Open Science Framework (OSF)

open-science osf reproducible-research

Last synced: 22 Nov 2024

https://github.com/alan-turing-institute/tcpdbench

The Turing Change Point Detection Benchmark: An Extensive Benchmark Evaluation of Change Point Detection Algorithms on real-world data

benchmark benchmark-suite change-detection change-point change-point-detection changepoint reproducible-paper reproducible-research reproducible-science

Last synced: 13 Nov 2024

https://github.com/rubenarslan/formr.org

Chain simple surveys into longer runs to build complex studies. Use R to generate pretty feedback and complex designs.

experience-sampling feedback formr javascript knitr opencpu php reproducible-research survey surveys

Last synced: 22 Nov 2024

https://github.com/alan-turing-institute/TCPDBench

The Turing Change Point Detection Benchmark: An Extensive Benchmark Evaluation of Change Point Detection Algorithms on real-world data

benchmark benchmark-suite change-detection change-point change-point-detection changepoint reproducible-paper reproducible-research reproducible-science

Last synced: 05 Nov 2024

https://github.com/Pakillo/rmdTemplates

Rmarkdown templates for reproducible science

r reproducible-research rmarkdown rmarkdown-templates rstudio

Last synced: 25 Oct 2024

https://github.com/pytask-dev/pytask

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

pytask reproducible-research scientific-workflows

Last synced: 01 Dec 2024

https://github.com/ropensci/git2rdata

An R package for storing and retrieving data.frames in git repositories.

r r-package reproducible-research rstats version-control

Last synced: 17 Nov 2024

https://github.com/ypares/porcupine

Express parametrable, composable and portable data pipelines

analytics haskell reproducible-research workflows

Last synced: 12 Oct 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 Dec 2024

https://github.com/CredibilityLab/groundhog

Reproducible R Scripts Via Date Controlled Installing & Loading of CRAN & Git Packages

cran r r-package reproducible-research rstats

Last synced: 04 Dec 2024

https://github.com/gesistsa/rang

🐶 (Re)constructing R computational environments

cran r reproducibility reproducible-research rstats

Last synced: 04 Dec 2024

https://github.com/credibilitylab/groundhog

Reproducible R Scripts Via Date Controlled Installing & Loading of CRAN & Git Packages

cran r r-package reproducible-research rstats

Last synced: 18 Dec 2024

https://github.com/ctuning/ck-env

CK repository with components and automation actions to enable portable workflows across diverse platforms including Linux, Windows, MacOS and Android. It includes software detection plugins and meta packages (code, data sets, models, scripts, etc) with the possibility of multiple versions to co-exist in a user or system environment.

android codereef collective-knowledge compilers datasets hpc libraries linux macos mobile-devices models multiple-versions package-manager portable-workflows python reproducible-research research-workflows tools windows

Last synced: 19 Nov 2024

https://github.com/luispedro/nixml

NIX + YAML for easy to use reproducible environments

nix python reproducible-research yaml

Last synced: 27 Oct 2024

https://github.com/parklab/nozzle

Nozzle is a report generation toolkit for data analysis pipelines implemented in R.

gehlenborglab html-report reproducible-research

Last synced: 04 Dec 2024

https://github.com/markvanderloo/lumberjack

Track changes in data with ease

daff datascience logging r reproducible-research

Last synced: 04 Dec 2024

https://github.com/federicomarini/pcaexplorer

pcaExplorer - Interactive exploration of Principal Components of Samples and Genes in RNA-seq data

bioconductor principal-components r reproducible-research rna-seq-analysis rna-seq-data shiny transcriptome user-friendly

Last synced: 18 Dec 2024