CNApy VS Clairvoyante

Compare CNApy vs Clairvoyante and see what are their differences.

CNApy

An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more! (by cnapy-org)
metabolic-models constraint-programming Bioinformatics flux-balance-analysis sbml systems-biology computational-biology Cobra stoichiometric-modeling constraint-based-modeling constraint-based-analysis metabolic-reconstruction constraint-based-reconstruction metabolic-networks flux-variability metabolic-engineering fba fva
Source Code
cnapy-org.github.io
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Clairvoyante

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing (by aquaskyline)
variant-calling Deep Learning Bioinformatics computational-biology
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CNApy Clairvoyante
1 1
41 172
- -
6.5 0.0
22 days ago 4 months ago
Python Python
Apache License 2.0 BSD 3-clause "New" or "Revised" License
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CNApy

Posts with mentions or reviews of CNApy. We have used some of these posts to build our list of alternatives and similar projects.
  • CNApy – An integrated environment for metabolic network analysis
    1 project | news.ycombinator.com | 19 Dec 2021
    CNApy is a desktop application for metabolic network analysis. It is a relative young project that aims to provide an integrated environment inspired by tools like CellNetAnalyser (CNA) and DD-DeCaf. In fact it started as a modernization of the CNA UI that allows to use functions from the CNA toolbox. CNApy is implemented in Python and uses Qt for the UI. Under the hood it uses COBRApy to implement the core model.

    The project has matured a lot and in the future we would love this project to be sustained on the basis of a broader community.

    Anyone that wants to get involved in the project, please let us know! We are looking for all kinds of contributions.

    Links:

    - [Project page on GitHub](https://github.com/cnapy-org/CNApy)

    - [CONTRIBUTING.md](https://github.com/cnapy-org/CNApy/blob/master/CONTRIBUTING....)

Clairvoyante

Posts with mentions or reviews of Clairvoyante. We have used some of these posts to build our list of alternatives and similar projects.
  • Installing packages for python2 with pip when they're already installed for python3
    1 project | /r/learnpython | 29 Jun 2021
    Hi! This might be a dumb question, but I am stuck at this problem. I am using Ubuntu 20.04 with Anaconda and I have both Python 2.7 and 3.7 on my system. I am trying to use this tool: https://github.com/aquaskyline/Clairvoyante but I am running into problems that there are packages, such as numpy and intervaltree that are installed for python3 but not for python2. When I run a python2 script that requires this package, I am getting errors like

What are some alternatives?

When comparing CNApy and Clairvoyante you can also consider the following projects:

dash-cytoscape - Interactive network visualization in Python and Dash, powered by Cytoscape.js

dance - DANCE: a deep learning library and benchmark platform for single-cell analysis

metaGEM - :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

pepper - PEPPER-Margin-DeepVariant

casq - CaSQ: Celldesigner as Sbml-Qual [https://gitlab.inria.fr/soliman/casq/ mirror]

OpenChem - OpenChem: Deep Learning toolkit for Computational Chemistry and Drug Design Research

biotite - A comprehensive library for computational molecular biology

CNApy vs dash-cytoscape Clairvoyante vs dance CNApy vs metaGEM Clairvoyante vs pepper CNApy vs casq Clairvoyante vs OpenChem CNApy vs biotite Clairvoyante vs dash-cytoscape Clairvoyante vs biotite Clairvoyante vs metaGEM