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    74 repositories

    • transomics2cytoscape

      Public
      Get and integrate the pathways to create a 3D transomics network visualization
      R
      •0•5•0•0•Updated Oct 28, 2024Oct 28, 2024

    • ECell_Dive

      Public
      C#
      •
      MIT License
      •0•3•0•0•Updated Oct 7, 2024Oct 7, 2024

    • ECell_Engine

      Public
      Real-time simulation engine for biological systems
      C++
      •
      MIT License
      •1•2•0•0•Updated Sep 26, 2024Sep 26, 2024

    • ecell4_base

      Public
      An integrated software environment for multi-algorithm, multi-timescale, multi-spatial-representation simulation of various cellular phenomena
      systems-biologypythonc-plus-plussimulationjupyter-notebook
      C++
      •
      GNU General Public License v3.0
      •23•63•31•1•Updated Mar 25, 2024Mar 25, 2024

    • kosmogora

      Public
      Jupyter Notebook
      •
      MIT License
      •1•1•4•0•Updated Oct 31, 2023Oct 31, 2023

    • bioimage_workflows

      Public
      Python
      •2•0•2•3•Updated Mar 14, 2023Mar 14, 2023

    • id2id

      Public
      Python
      •
      MIT License
      •0•0•10•0•Updated Jan 23, 2023Jan 23, 2023

    • transomics2cytoscape-py

      Public
      Automation of the transomics 2.5D network visualization
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 26, 2022Dec 26, 2022

    • SigmoID

      Public
      A Xojo/python tool for identification and annotation of transcription factor binding sites in bacterial genomes
      Xojo
      •
      GNU General Public License v3.0
      •4•0•0•0•Updated Sep 29, 2022Sep 29, 2022

    • transomics2cytoscape-input-datasets

      Public
      0•0•0•0•Updated Jun 27, 2022Jun 27, 2022

    • dash-pathway

      Public
      A Dash component for pathway visualization
      Python
      •
      MIT License
      •0•2•9•1•Updated Jun 16, 2022Jun 16, 2022

    • greens_functions11

      Public
      C++
      •0•0•0•0•Updated Jul 11, 2021Jul 11, 2021

    • ecell4_docs

      Public
      The Sphinx source for https://ecell4.e-cell.org/
      pythonsystems-biologyjupyter-notebook
      Jupyter Notebook
      •
      GNU General Public License v2.0
      •5•2•13•2•Updated May 8, 2021May 8, 2021

    • greens_functions

      Public
      C++
      •
      GNU General Public License v2.0
      •0•1•3•0•Updated Feb 16, 2021Feb 16, 2021

    • ecell4

      Public
      An integrated software environment for multi-algorithm, multi-timescale, multi-spatial-representation simulation of various cellular phenomena
      Python
      •
      GNU General Public License v3.0
      •9•18•31•1•Updated Jan 17, 2021Jan 17, 2021

    • kedro-bioimage

      Public
      Python
      •0•0•5•0•Updated Nov 30, 2020Nov 30, 2020

    • manylinux-dockerimage

      Public
      Base Docker image for building ecell4_base manylinux wheel
      Dockerfile
      •0•0•0•0•Updated Sep 18, 2020Sep 18, 2020

    • scopyon

      Public
      🔬 Monte Carlo simulation toolkit for bioimaging systems
      simulationopticspythonbioimaging-systems
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•7•6•0•Updated Sep 4, 2020Sep 4, 2020

    • blog

      Public
      The Hugo source for https://blog.e-cell.org
      HTML
      •0•0•0•0•Updated Jun 4, 2020Jun 4, 2020

    • ecell-website

      Public
      The Sphinx source for https://www.e-cell.org/
      Python
      •0•0•4•0•Updated Jun 3, 2020Jun 3, 2020

    • ecell4_base-feedstock

      Public
      A conda-smithy repository for ecell4_base.
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Apr 14, 2020Apr 14, 2020

    • staged-recipes

      Public
      A place to submit conda recipes before they become fully fledged conda-forge feedstocks
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5k•0•0•0•Updated Jan 3, 2020Jan 3, 2020

    • dash-bio

      Public
      Open-source bioinformatics components for Dash
      Python
      •
      MIT License
      •192•0•0•0•Updated Dec 31, 2019Dec 31, 2019

    • ecell4_hugo

      Public
      0•0•0•0•Updated Dec 29, 2019Dec 29, 2019

    • ecell_hugo

      Public
      CSS
      •1•0•1•0•Updated Dec 22, 2019Dec 22, 2019

    • spatiocyte

      Public
      C++
      •
      Other
      •2•3•2•0•Updated Jul 18, 2019Jul 18, 2019

    • ecell4_docs_manylinux

      Public
      GNU General Public License v2.0
      •0•0•0•0•Updated Jul 11, 2019Jul 11, 2019

    • ecell4-mac

      Public archive
      A repository for Mac OS X E-Cell4 wheels [Archived, We moved from wheel to conda package.]
      Shell
      •1•0•1•0•Updated May 10, 2019May 10, 2019

    • ecell4-docs-ja

      Public
      Python
      •0•0•0•0•Updated Feb 14, 2019Feb 14, 2019

    • docker4azure

      Public
      Dockerfile
      •0•0•0•0•Updated Jan 17, 2019Jan 17, 2019