Projects: pypi: cobra
https://packages.ecosyste.ms/registries/pypi.org/packages/cobra
COBRApy is a package for constraint-based modeling of metabolic networks.
98 versions
Latest release: over 2 years ago
37 dependent packages
9,511 downloads last month
Enhanced Analysis
Educational Contributors:
aebrahim@ucsd.edu
w.bryant@imperial.ac.uk
jmonk@ucsd.edu
h8dinh@eng.ucsd.edu
mundy.michael@mayo.edu
Repository Activity:
Repository Owner:
openCOBRA (organization)
Community driven constraint-based reconstruction, analysis and modelling of biology Institutional
Community driven constraint-based reconstruction, analysis and modelling of biology Institutional
README Analysis:
Science Score: 100/100
Starting Score: 100 points
Bonuses:
-
+100
Educational commit emails
5 contributors with educational email addresses -
+15
Institutional repository owner
Repository owned by research institution -
+14
Science terms in README
7 scientific terms found in README -
+20
DOI references
2 DOI references found in README
Penalties:
-
-10
PyPI ecosystem
General-purpose ecosystem
Very Likely Science (100)
Papers Mentioning cobra 8
10.1371/journal.pcbi.1006644
A computational knowledge-base elucidates the response of Staphylococcus aureus to different media typesCited by: 35
Author(s): Yara Seif, Jonathan M. Monk, Nathan Mih, Hannah Tsunemoto, Saugat Poudel, Cristal Zuñiga, Jared T. Broddrick, Karsten Zengler, Jaehyung Kim
Software Mentions: 7
Published: over 7 years ago
10.1186/s12934-016-0456-0
Diversity of flux distribution in central carbon metabolism of S. cerevisiae strains from diverse environmentsCited by: 24
Author(s): Thibault Nidelet, Pascale Brial, Carole Camarasa, Sylvie Dequin
Software Mentions: 6
Published: about 10 years ago
10.1371/journal.pcbi.1007786
Minimizing the number of optimizations for efficient community dynamic flux balance analysisCited by: 12
Author(s): James D. Brunner, Nicholas Chia
Software Mentions: 5
Published: over 5 years ago
10.1128/mSystems.00913-20
Genome-Scale Metabolic Models and Machine Learning Reveal Genetic Determinants of Antibiotic Resistance in Escherichia coli and Unravel the Underlying Metabolic Adaptation MechanismsCited by: 23
Author(s): Nicole Pearcy, Yue Hu, Michelle Baker, Alexandre Maciel-Guerra, Ning Xue, Wei Wang, Jasmeet Kaler, Zong–Gen Peng, Fengqin Li, Tania Dottorini
Software Mentions: 5
Published: almost 5 years ago
10.7554/eLife.49305
Evolution of C4 photosynthesis predicted by constraint-based modellingCited by: 42
Author(s): Mary Ann Blätke, Andrea Bräutigam
Software Mentions: 4
Published: over 6 years ago
10.1186/s12859-020-3410-4
FastMM: an efficient toolbox for personalized constraint-based metabolic modelingCited by: 6
Author(s): Gong‐Hua Li, Shao‐Xing Dai, Feifei Han, Weihua Li, Jing‐Fei Huang, Wenzhong Xiao
Software Mentions: 4
Published: over 6 years ago
10.3390/bioengineering8080103
TCA Cycle and Its Relationship with Clavulanic Acid Production: A Further Interpretation by Using a Reduced Genome-Scale Metabolic Model of Streptomyces clavuligerusCited by: 3
Author(s): Howard Ramírez-Malule, Víctor A. López-Agudelo, David Rios, Silvia Ochoa, Rigoberto Ríos‐Estepa, Stefan Junne, Peter Neubauer
Software Mentions: 2
Published: almost 5 years ago
10.1111/1751-7915.12871
Fine‐tuning the <i>P. pastoris</i> iMT1026 genome‐scale metabolic model for improved prediction of growth on methanol or glycerol as sole carbon sourcesCited by: 46
Author(s): Màrius Tomàs-Gamisans, Pau Ferrer, Joan Albiol
Software Mentions: 2
Published: over 8 years ago