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@realLCSB realLCSB released this 14 May 11:05
· 65 commits to master since this release
0.9.0-b1
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Learn about vigilant mode.

This release includes (finally!) a Python implementation of our redGEM[1] and lumpGEM[2] papers for systematic genome-scale metabolic model reduction.
The code is still in development, so any feedback is welcome :)

This version also features:

  • Fixed variables/constraint removal
  • Faster relaxation
  • Repaired autodocumentation
  • Lots of code cleanup
  • Minor fixes

[1] Ataman, Meric, et al. "redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models." PLoS computational biology 13.7 (2017): e1005444.
https://doi.org/10.1371/journal.pcbi.1005444

[2] Ataman, Meric, and Vassily Hatzimanikatis. "lumpGEM: Systematic generation of subnetworks and elementally balanced lumped reactions for the biosynthesis of target metabolites." PLoS computational biology 13.7 (2017): e1005513.
https://doi.org/10.1371/journal.pcbi.1005513

Assets 2