Multiscale Systems Biology Collaboration
Freely available software
- COBRA toolbox
MATLAB toolbox for constraint-based reconstruction and analysis (COBRA).
A primal-dual path-following method for cone programming (Matlab)
A tool to compute efficiently flux variability analysis on large-scale
Routines for dense LU factorization and updates (f77).
Routines for sparse LU factorization and updates (f77, f90, and Matlab interface).
Matlab routines for sparse nullspace computations using SuiteSparseQR
A primal-dual interior point method for large-scale optimization
with convex objective and linear constraints (Matlab).
Proximal Newton-type methods for minimizing composite functions
(unconstrained optimization of the sum of smooth and nonsmooth functions)