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@ucl-cssb Computational Systems and Synthetic Biology, UCL

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    25 repositories

    • cneta

      Public
      Copy Number Evolutionary Tree Analysis
      C++
      •
      GNU General Public License v3.0
      •0•5•1•0•Updated Mar 18, 2026Mar 18, 2026

    • genome-minimizer-2

      Public
      Updated genome minimizer package
      Python
      •1•0•1•0•Updated Mar 18, 2026Mar 18, 2026

    • MIMIC

      Public
      Modelling and Inference of MICrobiomes Project (MIMIC) is a Python package dedicated to simulate, model, and predict microbial communities interactions
      biologysynthetic-biologymodeling
      biologysynthetic-biologymodelingcomputational-biologymicrobial-communitiesmicrobiomeregression-modelsconsortiumsynthetic-dataset-generation
      Python
      •
      MIT License
      •1•10•15•0•Updated Dec 20, 2025Dec 20, 2025

    • CIN_SV

      Public
      R
      •
      MIT License
      •0•0•0•0•Updated Sep 23, 2025Sep 23, 2025

    • flopr

      Public
      An R package for the processing of plate reader and flow cytometry data. This includes: normalisation and calibration of plate reader data, and removing debris …
      calibrationfluorescenceflow-cytometry
      calibrationfluorescenceflow-cytometrynormalisationmicroplate-readerplate-reader
      R
      •
      GNU General Public License v3.0
      •6•10•0•0•Updated Aug 12, 2025Aug 12, 2025

    • genome_minimizer

      Public
      Python
      •
      Other
      •1•0•0•0•Updated Jul 7, 2025Jul 7, 2025

    • DeepCNA

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Feb 19, 2025Feb 19, 2025

    • ucl-cssb.github.io

      Public
      CSS
      •
      Other
      •0•0•0•0•Updated Feb 14, 2025Feb 14, 2025

    • colony-com

      Public
      Diffusion model of a system where sender strains produce AHL in the presence of arabinose. AHL diffuses and activates GFP production in receiver strains
      Python
      •
      MIT License
      •7•0•0•0•Updated Nov 20, 2024Nov 20, 2024

    • DODL

      Public
      DODL: digital optimisation of diffusible logic
      Python
      •1•0•0•0•Updated Apr 5, 2023Apr 5, 2023

    • worm_neural_nets

      Public
      Python
      •1•0•0•0•Updated Feb 1, 2023Feb 1, 2023

    • Spatial-Computing

      Public
      Python
      •1•0•0•0•Updated Sep 20, 2022Sep 20, 2022

    • RED

      Public
      Reinforcment learning for Experimental Design
      Python
      •
      MIT License
      •6•3•0•0•Updated Apr 6, 2022Apr 6, 2022

    • CIN_CRC

      Public
      C++
      •1•1•0•0•Updated Dec 8, 2021Dec 8, 2021

    • experimentDB

      Public
      Simple experimental data management
      R
      •0•1•0•0•Updated Oct 27, 2021Oct 27, 2021

    • CIN_PDO

      Public
      Roff
      •
      MIT License
      •0•1•0•0•Updated May 14, 2021May 14, 2021

    • simulate_cell_growth

      Public
      C++
      •
      MIT License
      •0•1•0•0•Updated Apr 27, 2021Apr 27, 2021

    • WCM_plasmid_loss

      Public
      Python
      •0•0•0•0•Updated Mar 29, 2021Mar 29, 2021

    • AutoCD

      Public
      Automated synthetic microbial Community Design
      C++
      •3•13•0•0•Updated Mar 26, 2021Mar 26, 2021

    • ROCC

      Public
      ROCC: Reinforcement learning for the Optimisation of Co-Cultures
      Python
      •
      MIT License
      •4•13•0•0•Updated Nov 17, 2020Nov 17, 2020

    • sv-model

      Public
      A package that generates and models the evolution of structural variation in cancer genomes through multiple cell cycles, aimed at elucidating the mechanisms be…
      Python
      •1•0•0•0•Updated Sep 10, 2020Sep 10, 2020

    • synbioweaver

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 1, 2018Sep 1, 2018

    • ABC-Flow

      Public
      Python
      •2•1•0•0•Updated Aug 12, 2018Aug 12, 2018

    • StabilityFinder

      Public
      Main code area
      Python
      •0•1•0•0•Updated Oct 3, 2016Oct 3, 2016

    • wavelength2colour

      Public
      Convert a numeric wavelength to an RGB or Hex colour
      R
      •0•3•0•0•Updated Sep 2, 2016Sep 2, 2016
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