A serializable type schema for compositional systems biology

Navigation

Verified details

These details have been verified by PyPI
Maintainers
Avatar for eagmon from gravatar.com eagmon Avatar for youdonotexist from gravatar.com youdonotexist

Unverified details

These details have not been verified by PyPI
Meta
  • Author: Eran Agmon, Ryan Spangler
  • Requires: Python >=3.9
Report project as malware

Project description

Bigraph-Schema

PyPI version Tutorial

bigraph-schema provides a serializable type schema for compositional and multiscale modeling.
It defines a compact, extensible language for describing hierarchical data structures — the foundation of the Vivarium 2.0 simulation framework.

The library offers a unified interface for representing, validating, and transforming schemas and data in structured simulations.
By standardizing schema definitions, it enables interoperability between models, extensibility across frameworks, and reproducibility of computational experiments.

Installation

Install directly from PyPI:

pip install bigraph-schema

Getting Started

The following resources provide guided introductions and examples:

Related Projects

  • Vivarium – a compositional framework for hybrid biological simulations.
  • Bigraph-Viz – visualization tools for bigraph-schema models.
  • Process-Bigraph – process composition and orchestration built on bigraph-schema.

License

bigraph-schema is open-source software released under the Apache 2.0 License.

Project details

Verified details

These details have been verified by PyPI
Maintainers
Avatar for eagmon from gravatar.com eagmon Avatar for youdonotexist from gravatar.com youdonotexist

Unverified details

These details have not been verified by PyPI
Meta
  • Author: Eran Agmon, Ryan Spangler
  • Requires: Python >=3.9

Release history Release notifications | RSS feed

1.3.2

1.3.1

1.3.0

1.2.17

1.2.16

1.2.15

1.2.14

1.2.12

1.2.11

1.2.10

1.2.9

1.2.8

1.2.7

1.2.6

1.2.5

This version

1.2.4

1.2.3

1.2.1

1.1.6

1.1.5

1.1.4

1.1.3

1.1.2

1.1.1

1.0.15

1.0.14

1.0.13

1.0.12

1.0.11

1.0.5

1.0.4

1.0.3

1.0.2

1.0.1

1.0.0

0.0.77

0.0.75

0.0.74

0.0.73

0.0.72

0.0.71

0.0.68

0.0.65

0.0.64

0.0.63

0.0.62

0.0.60

0.0.59

0.0.58

0.0.57

0.0.56

0.0.55

0.0.54

0.0.53

0.0.52

0.0.51

0.0.50

0.0.49

0.0.48

0.0.47

0.0.46

0.0.45

0.0.44

0.0.43

0.0.42

0.0.41

0.0.38

0.0.37

0.0.35

0.0.32

0.0.31

0.0.30

0.0.29

0.0.28

0.0.27

0.0.22

0.0.21

0.0.19

0.0.18

0.0.17

0.0.15

0.0.14

0.0.13

0.0.12

0.0.11

0.0.9

0.0.8

0.0.7

0.0.6

0.0.5

0.0.4

0.0.3

0.0.2

0.0.1

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

bigraph_schema-1.2.4.tar.gz (115.0 kB view details)

Uploaded Source

Built Distribution

If you're not sure about the file name format, learn more about wheel file names.

bigraph_schema-1.2.4-py3-none-any.whl (130.8 kB view details)

Uploaded Python 3

File details

Details for the file bigraph_schema-1.2.4.tar.gz.

File metadata

  • Download URL: bigraph_schema-1.2.4.tar.gz
  • Upload date:
  • Size: 115.0 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? Yes
  • Uploaded via: twine/6.1.0 CPython/3.13.12

File hashes

Hashes for bigraph_schema-1.2.4.tar.gz
Algorithm Hash digest
SHA256 4b9179b119a09ccc456ca0e1e3bfb2836ee612af26de7e46092dae047f843f73
MD5 f92fb6a472b55a9899ba7bece0f602d9
BLAKE2b-256 63b0905a0cdee37d920c090aedabb57cc5db338d897c1ed13e10aecf135234bf

See more details on using hashes here.

Provenance

The following attestation bundles were made for bigraph_schema-1.2.4.tar.gz:

Publisher: release.yml on vivarium-collective/bigraph-schema

Attestations: Values shown here reflect the state when the release was signed and may no longer be current.

File details

Details for the file bigraph_schema-1.2.4-py3-none-any.whl.

File metadata

  • Download URL: bigraph_schema-1.2.4-py3-none-any.whl
  • Upload date:
  • Size: 130.8 kB
  • Tags: Python 3
  • Uploaded using Trusted Publishing? Yes
  • Uploaded via: twine/6.1.0 CPython/3.13.12

File hashes

Hashes for bigraph_schema-1.2.4-py3-none-any.whl
Algorithm Hash digest
SHA256 8041f6b4d56a8af53d71cfe9ba79b8771355d8dbd494930114e948349ffc49ee
MD5 0bc2993b3fe55dd4520bb942295f1e9b
BLAKE2b-256 794370c446daa5db869f1e31b918fbb3efa31f826050334bf5dc6c0fc0d10ae2

See more details on using hashes here.

Provenance

The following attestation bundles were made for bigraph_schema-1.2.4-py3-none-any.whl:

Publisher: release.yml on vivarium-collective/bigraph-schema

Attestations: Values shown here reflect the state when the release was signed and may no longer be current.

Supported by

AWS Cloud computing and Security Sponsor Datadog Monitoring Depot Continuous Integration Fastly CDN Google Download Analytics Pingdom Monitoring Sentry Error logging StatusPage Status page