Alternatives and similar repositories for vivarium-core

Users that are interested in vivarium-core are comparing it to the libraries listed below

• biosimulations / biosimulations
  A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
  ☆42Updated last week
• idekerlab / MuSIC
  Multi-Scale Integrated Cell
  ☆36Updated 3 years ago
• RuleWorld / bionetgen
  Rule-based modeling framework
  ☆65Updated 8 months ago
• broadinstitute / lincs-cell-painting
  Processed Cell Painting Data for the LINCS Drug Repurposing Project
  ☆32Updated 3 years ago
• reactome / reactome2py
  python client for reactome content, analysis, and human functional protein interactions (FI) services api calls.
  ☆34Updated last year
• ginkgobioworks / edge
  Efficiently keep track of changes to genomes
  ☆38Updated last year
• pysb / pysb
  Python framework for Systems Biology modeling
  ☆190Updated 6 months ago
• mcellteam / cellblender
  Create, Simulate, Visualize, and Analyze Realistic 3D Cell Models
  ☆68Updated 8 months ago
• bowang-lab / scFormer
  ☆19Updated 2 years ago
• virtualcell / vcell
  Virtual Cell Framework
  ☆107Updated last week
• PhysiBoSS / PhysiBoSS
  PhysiBoSS 2.0: a sustainable integration of stochastic Boolean and agent-based modelling frameworks
  ☆30Updated last week
• chanzuckerberg / cz-benchmarks
  cz-benchmarks is a package for standardized evaluation and comparison of machine learning models for biological applications.
  ☆48Updated last month
• KarrLab / intro_to_wc_modeling
  Whole-cell modeling tutorials
  ☆16Updated 5 years ago
• sanderlab / CellBox
  CellBox: Interpretable Machine Learning for Perturbation Biology
  ☆56Updated 2 years ago
• whitews / FlowIO
  A Python library for reading and writing Flow Cytometry Standard (FCS) files
  ☆55Updated 2 months ago
• DistributedScience / Distributed-CellProfiler
  Run encapsulated docker containers with CellProfiler in the Amazon Web Services infrastructure.
  ☆44Updated last week
• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆63Updated 2 years ago
• mcellteam / mcell
  MCell Monte Carlo Simulator of Cellular Microphysiology
  ☆37Updated 8 months ago
• LoLab-MSM / pyvipr
  Jupyter widget for the dynamic and static visualizations of systems biology models written in PySB, BNGL, and SBML
  ☆27Updated 2 years ago
• AAnzel / MOVIS
  MOVIS: A Multi-Omics Software Solution for Multi-modal Time-Series Clustering, Embedding, and Visualizing Tasks, by Aleksandar Anžel, Dom…
  ☆10Updated 3 years ago
• sys-bio / tellurium
  Python Environment for Modeling and Simulating Biological Systems
  ☆131Updated last month
• obophenotype / cell-ontology
  An ontology of cell types
  ☆186Updated this week
• MathCancer / PhysiCell
  PhysiCell: Scientist end users should use latest release! Developers please fork the development branch and submit PRs to the dev branch.…
  ☆194Updated 3 weeks ago
• idekerlab / DCell
  DCell browser and gene deletion simulator
  ☆124Updated 3 years ago
• boscoh / uniprot
  retrieve protein sequence identifiers and metadata from http://uniprot.org
  ☆68Updated 3 weeks ago
• Sage-Bionetworks / synapsePythonClient
  Programmatic interface to Synapse services for Python
  ☆78Updated this week
• cellmodeller / CellModeller
  GPU-accelerated multicellular modelling framework
  ☆71Updated 9 months ago
• CovertLab / WholeCellEcoliRelease
  Release of the whole cell E. coli model.
  ☆74Updated last year
• SBRG / Recon3D
  A 3-Dimensional View of Human Metabolism and Disease
  ☆31Updated 7 years ago
• erolkavvas / metabolic-allele-classifiers
  A flux balance analysis machine learning classifier for microbial GWAS
  ☆14Updated 6 years ago