ReFramed
ReFramed: metabolic modeling package
ReFramed implements many constraint-based simulation methods (see list below), and contains interfaces to other libraries of the COBRA ecosystem including escher, cobrapy, and optlang.
Available methods
Name |
Long name |
Reference |
|---|---|---|
FBA |
Flux Balance Analysis |
(Varma and Palsson, 1993) |
FVA |
Flux Variability Analysis |
(Mahadevan and Schilling, 2003) |
pFBA |
Parsimonious FBA |
(Lewis et al, 2010) |
FBrAtio |
FBA with flux ratios |
(Yen et al, 2013) |
CAFBA |
Constrained Allocation FBA |
(Mori et al, 2016) |
MOMA |
Minimization of Metabolic Adjustment |
(Segre et al, 2002) |
lMOMA |
linear MOMA |
(Segre et al, 2002) |
ROOM |
Regulatory On/Off Minimization |
(Shlomi et al, 2005) |
ll-FBA |
loopless FBA |
(Schellenberger et al, 2011) |
TFA |
Thermodynamic Flux Analysis |
(Henry et al, 2007) |
TVA |
Thermodynamic Variability Analysis |
(Henry et al, 2007) |
NET |
Network-embedded thermodynamic analysis |
(Kummel et al 2006) |
GIMME |
Gene Inactivity Moderated by Met and Exp |
(Becker and Palsson, 2008) |
E-Flux |
E-Flux |
(Colijn et al, 2009) |
SteadyCom |
Community simulation |
(Chan et al, 2017) |
Credits and License
Developed by Daniel Machado at the Norwegian University of Science and Technology (NTNU).
ReFramed is a refactored version of the framed library.
Released under an Apache License.
1 maintainer
Release files for reframed 1.6.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| reframed-1.6.0.tar.gz | 665.2 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| reframed-1.6.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 1.3 MB
Release files / reframed-1.6.0.tar.gz
| Download URL | reframed-1.6.0.tar.gz |
|---|---|
| Size | 665.2 kB |
| Tags | Source |
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Release files / reframed-1.6.0-py3-none-any.whl
| Download URL | reframed-1.6.0-py3-none-any.whl |
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| Size | 646.2 kB |
| Tags | Python 3 |
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