Data

Tools

Indexes

Applications

Experiments

Open Sustainable Technology

https://github.com/becksteinlab/zarrtraj

Zarrtraj: A Python package for streaming molecular dynamics trajectories from cloud services - Published in JOSS (2026)
file-format mdanalysis molecular-dynamics streaming zarr
Added: 3 months ago - Last Synced: 3 months ago - Created: January 10, 2024

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 294
  • Committers: 4
  • Issues: 53
  • Pull Requests: 72
  • Owner: Becksteinlab
  • Stars: 9
  • Forks: 2
  • Packages: 1
  • Downloads: 190
http://github.com/cdjellen/ndbc-api

ndbc-api: Accelerating oceanography and climate science research with Python - Published in JOSS (2024)
api climate noaa ocean python
Added: 10 months ago - Last Synced: 10 months ago - Created: May 25, 2022

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 198
  • Committers: 5
  • Issues: 13
  • Pull Requests: 71
  • Owner: CDJellen
  • Stars: 24
  • Forks: 5
  • Packages: 0
https://github.com/sequana/sequana

'Sequana': a Set of Snakemake NGS pipelines - Published in JOSS (2017)
coverage de-novo ngs pacbio rna-seq sequanix snakemake taxonomy variant-calling
Added: 10 months ago - Last Synced: 10 months ago - Created: March 07, 2016

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 5816
  • Committers: 10
  • Issues: 54
  • Pull Requests: 139
  • Owner: sequana
  • Stars: 148
  • Forks: 28
  • Packages: 1
  • Downloads: 864
https://github.com/Frost-group/PolaronMobility.jl

PolaronMobility.jl: Implementation of the Feynman variational polaron model - Published in JOSS (2018)
mobility path-integral physics polarons solid-state
Added: 10 months ago - Last Synced: 10 months ago - Created: April 03, 2017

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 498
  • Committers: 2
  • Issues: 15
  • Pull Requests: 7
https://github.com/raamana/graynet

graynet: single-subject morphometric networks for neuroscience connectivity applications - Published in JOSS (2018)
anatomical-mri cortical-network cortical-thickness feature-extraction freesurfer graph gray-matter machine-learning mindboggle network-analysis neuroimaging neuroscience structural-mri thickness vbm voxel-based
Added: 10 months ago - Last Synced: 10 months ago - Created: July 27, 2017

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 297
  • Committers: 3
  • Issues: 25
  • Pull Requests: 39
  • Owner: raamana
  • Stars: 38
  • Forks: 8
  • Packages: 1
  • Downloads: 102
https://github.com/benjamin-lee/codonadaptationindex

Python Implementation of Codon Adaptation Index - Published in JOSS (2018)
bioinformatics codons genetics
Added: 10 months ago - Last Synced: 10 months ago - Created: August 14, 2017

  • Relevant topics? true
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  • Main Language: Jupyter Notebook
  • Commits: 111
  • Committers: 3
  • Issues: 11
  • Pull Requests: 6
  • Owner: Benjamin-Lee
  • Stars: 37
  • Forks: 11
  • Packages: 1
  • Downloads: 258
https://github.com/python-hydro/pyro2

pyro: a framework for hydrodynamics explorations and prototyping - Published in JOSS (2019)
advection astrophysical-simulation finite-volume finite-volume-methods hydrodynamics multigrid pde pyro python simulation solver
Added: 10 months ago - Last Synced: 10 months ago - Created: June 06, 2014

  • Relevant topics? true
  • External users? true
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  • Main Language: Jupyter Notebook
  • Commits: 1649
  • Committers: 18
  • Issues: 41
  • Pull Requests: 361
  • Owner: python-hydro
  • Stars: 327
  • Forks: 129
  • Packages: 1
  • Downloads: 130
https://github.com/paudetseis/telewavesim

Telewavesim: Python software for teleseismic body wave modeling - Published in JOSS (2019)
anisotropy fortran geophysics modeling obs plane-waves python receiver-functions seismology sks
Added: 10 months ago - Last Synced: 10 months ago - Created: August 26, 2019

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 236
  • Committers: 3
  • Issues: 25
  • Pull Requests: 27
  • Owner: paudetseis
  • Stars: 78
  • Forks: 19
  • Packages: 1
  • Downloads: 58
https://github.com/swe-unistuttgart/qlunc

Qlunc: Quantification of lidar uncertainty - Published in JOSS (2021)
jupyterlab openlidar python uncertainty wind-lidar
Added: 10 months ago - Last Synced: 10 months ago - Created: May 04, 2020

  • Relevant topics? true
  • External users? true
  • Open source license? true
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  • Main Language: Jupyter Notebook
  • Commits: 2068
  • Committers: 6
  • Issues: 13
  • Pull Requests: 96
https://github.com/dazhwu/pydynpd

pydynpd: A Python package for dynamic panel model - Published in JOSS (2023)
arellano-bond data dynamic dynamic-panel-data panel system-gmm
Added: 10 months ago - Last Synced: 10 months ago - Created: March 04, 2022

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 345
  • Committers: 3
  • Issues: 9
  • Pull Requests: 4
  • Owner: dazhwu
  • Stars: 31
  • Forks: 8
  • Packages: 1
  • Downloads: 1,298
https://github.com/polca/unfold

unfold: removing the barriers to sharing and reproducing prospective life-cycle assessment databases - Published in JOSS (2023)
ecoinvent premise prospective scenario
Added: 10 months ago - Last Synced: 10 months ago - Created: November 13, 2022

  • Relevant topics? true
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  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 165
  • Committers: 2
  • Issues: 14
  • Pull Requests: 0
  • Owner: polca
  • Stars: 12
  • Forks: 1
  • Packages: 0
https://github.com/bwheelz36/particlephasespace

ParticlePhaseSpace: A python package for streamlined import, analysis, and export of particle phase space data - Published in JOSS (2023)
accelerator-physics particles phase-space topas topas-mc twiss
Added: 10 months ago - Last Synced: 10 months ago - Created: December 15, 2022

  • Relevant topics? false
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 222
  • Committers: 4
  • Issues: 74
  • Pull Requests: 76
  • Owner: bwheelz36
  • Stars: 14
  • Forks: 8
  • Packages: 0
https://github.com/servir/servir-aces

servir-aces: A Python Package for Training Machine Learning Models for Remote Sensing Applications - Published in JOSS (2024)
agriculture mapping remote-sensing
Added: 10 months ago - Last Synced: 10 months ago - Created: February 20, 2024

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 132
  • Committers: 4
  • Issues: 4
  • Pull Requests: 107
  • Owner: SERVIR
  • Stars: 16
  • Forks: 5
  • Packages: 1
  • Downloads: 51
https://github.com/vegewaterdynamics/motrainer

MOTrainer: Distributed Measurement Operator Trainer for Data Assimilation Applications - Published in JOSS (2024)
data-assimilation distributed-computing kalman-filter machine-learning
Added: 10 months ago - Last Synced: 10 months ago - Created: September 30, 2020

  • Relevant topics? true
  • External users? true
  • Open source license? true
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  • Main Language: Jupyter Notebook
  • Commits: 307
  • Committers: 6
  • Issues: 53
  • Pull Requests: 64
https://github.com/cthoyt/chembl-downloader

Improving reproducibility of cheminformatics workflows with chembl-downloader - Published in JOSS (2025)
bioinformatics chembl cheminformatics chemogenomics chemometrics machine-learning pharmacology proteochemometrics python reproducible-research toxicology
Added: 10 months ago - Last Synced: 10 months ago - Created: July 27, 2021

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
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  • Main Language: Jupyter Notebook
  • Commits: 159
  • Committers: 4
  • Issues: 7
  • Pull Requests: 27
  • Owner: cthoyt
  • Stars: 80
  • Forks: 15
  • Packages: 2
  • Downloads: 9,064