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

This version

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

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-1.3.2.tar.gz (119.8 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-1.3.2-py3-none-any.whl (135.3 kB view details)

Uploaded Python 3

File details

Details for the file bigraph_schema-1.3.2.tar.gz.

File metadata

  • Download URL: bigraph_schema-1.3.2.tar.gz
  • Upload date:
  • Size: 119.8 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? Yes
  • Uploaded via: twine/6.1.0 CPython/3.13.12

File hashes

Hashes for bigraph_schema-1.3.2.tar.gz
Algorithm Hash digest
SHA256 a36bc34b9a2a65e49fa496d83087ba591d1508b07948b521803f3348ae74988c
MD5 6b05bba097bf708ed577cc86a1357287
BLAKE2b-256 b10ee004ee7b20f921f854fd98a32b5f531d6cd164a263889dae3c1f3ae251bc

See more details on using hashes here.

Provenance

The following attestation bundles were made for bigraph_schema-1.3.2.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-1.3.2-py3-none-any.whl.

File metadata

  • Download URL: bigraph_schema-1.3.2-py3-none-any.whl
  • Upload date:
  • Size: 135.3 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-1.3.2-py3-none-any.whl
Algorithm Hash digest
SHA256 75ab124e2df97002a492cf8d28bb98f4c4f8aeafbe0115a6ae45308544075080
MD5 9e363ba165f6f7687f26e0436f5f15bc
BLAKE2b-256 000a4ebc8e142b8b99db443c982c8424fec6087283396e5cff45cb19a260b449

See more details on using hashes here.

Provenance

The following attestation bundles were made for bigraph_schema-1.3.2-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