cobrapy | based modeling of metabolic networks | Genomics library

by opencobra Jupyter Notebook Version: 0.26.3 License: GPL-2.0

X-Ray Key Features Code Snippets Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | cobrapy Summary

cobrapy is a Jupyter Notebook library typically used in Artificial Intelligence, Genomics applications. cobrapy has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. You can download it from GitHub.

COBRApy is a package for constraint-based modeling of metabolic networks.

Support

Quality

Security

License

Reuse

Support

cobrapy has a low active ecosystem.

It has 394 star(s) with 197 fork(s). There are 40 watchers for this library.

It had no major release in the last 12 months.

There are 69 open issues and 562 have been closed. On average issues are closed in 475 days. There are 15 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of cobrapy is 0.26.3

Quality

cobrapy has 0 bugs and 0 code smells.

Security

cobrapy has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

cobrapy code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

cobrapy is licensed under the GPL-2.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

cobrapy releases are available to install and integrate.

cobrapy saves you 108449 person hours of effort in developing the same functionality from scratch.

It has 117720 lines of code, 888 functions and 139 files.

It has high code complexity. Code complexity directly impacts maintainability of the code.

Top functions reviewed by kandi - BETA

kandi has reviewed cobrapy and discovered the below as its top functions. This is intended to give you an instant insight into cobrapy implemented functionality, and help decide if they suit your requirements.

Generate the parsimonious flux distribution
Return a list of matching items
Optimize the solver
Calculate a proposed PFA
Generate FVA warmup
Determines if a matrix is redundant
Creates a shared numpy array shared with the given shape and data
Return HTML representation of the model
Formats a long string
Extend the model
Save a model to file
Set reaction limits
Return an HTML representation of the feed
Adds lexicographic constraints to model
Render the objective table as HTML
Adds an absolute expression
Return a string representation of the reaction
Creates a parsimonious flux distribution
Create a solution for a given model
Estimate the product for a given reaction
Write a model to file
Return a string representation of the objective function
Return string representation of the model
Return a string representation of the feed
Load a model
Load a MATLAB model

Get all kandi verified functions for this library.

cobrapy Key Features

No Key Features are available at this moment for cobrapy.

cobrapy Examples and Code Snippets

No Code Snippets are available at this moment for cobrapy.

Community Discussions

Trending Discussions on cobrapy

How to read attributes for a sbml file with libsbml

QUESTION

How to read attributes for a sbml file with libsbml

Asked 2021-Jan-22 at 05:25

I have a sbml model from Reactome, you can download it from https://reactome.org/content/detail/R-HSA-156581 and clicking sbml. For the , some of it have attribute of , and I'm trying to use libsbml or cobrapy for doing that.

My code read the sbml file, but how to get the attribute for ?

...

ANSWER

Answered 2021-Jan-22 at 05:25

The libsbml API is designed to directly mimic the structure of SBML itself. So, once you have the model, you get the reactions from the model, and once you have a reaction, you get the reaction's modifiers:

Source https://stackoverflow.com/questions/65814346

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install cobrapy

You can download it from GitHub.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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