SBRG/cobrame

Issues

• Adding translation reaction without utility function

  #40 opened 6 months ago by FH96
  0

• Cannot build docker image

  #39 opened 7 months ago by mheydasch
  0

• CobraPy version not being correctly detected

  #38 opened a year ago by geno-nvenayak
  2

• Cannot convert expression to float in build_me_model.ipynb

  #37 opened 3 years ago by bigsuicideparty
  1

• Changing objective function for optimization in COBRAME

  #36 opened 5 years ago by sumanasri
  0

• biomass constituents

  #35 opened 5 years ago by weif000
  1

• In algorithms.py,function binary_search()

  #34 opened 6 years ago by weif000
  2

• [question] Auxotroph E. coli

  #33 opened 6 years ago by emarquezz
  0

• Access to MiniME or pickled version of iJL965_ME that does not depend on MiniME?

  #30 opened 6 years ago by djinnome
  9

• COBRAme workshop

  #32 opened 6 years ago by fairquestion
  0

• Runtime error when attempting to remove genes from model

  #29 opened 7 years ago by djinnome
  3

• Allow lower case nucleotide sequences or make error explicit

  #28 opened 7 years ago by coltonlloyd
  0

• knockout gene

  #25 opened 7 years ago by Mzohrabi
  3

• Issues that need to be fixed to run Docker version successfully

  #27 opened 7 years ago by djinnome
  11

• FVA in COBRAme

  #26 opened 7 years ago by Mzohrabi
  1

• model.update() intention

  #9 opened 7 years ago by hvdinh16
  0

• Acetate production prediction

  #20 opened 7 years ago by emarquezz
  1

• Specify metabolite compartments in JSON

  #21 opened 7 years ago by coltonlloyd
  1

• Remove <metabolite>.mass handling

  #22 opened 7 years ago by coltonlloyd
  1

• Add docker script

  #23 opened 7 years ago by coltonlloyd
  1

• [subreaction].enzyme should always be a list or None

  #24 opened 7 years ago by coltonlloyd
  0

• processdata.py met does not have formula

  #19 opened 7 years ago by emarquezz
  1

• Separate check mass balance functions for each MEReaction subclass

  #1 opened 7 years ago by coltonlloyd
  1

• Combine ModificationData and SubreactionData

  #12 opened 7 years ago by coltonlloyd
  1

• Allow changing StoichiometricData stoichiometry without changing hidden attribute

  #15 opened 7 years ago by coltonlloyd
  1

• Model dictlist attributes should only include process_data

  #18 opened 7 years ago by coltonlloyd
  1

• MetabolicReaction should include complex.id

  #17 opened 7 years ago by coltonlloyd
  0

• [question] steps to add a new gene + product

  #16 opened 7 years ago by cdiener
  2

• Compatibility with COBRApy versions > 0.6.0

  #14 opened 7 years ago by coltonlloyd
  0

• COBRAme JSON loading

  #3 opened 7 years ago by zakandrewking
  1

• Linking enzymes to keffs

  #10 opened 8 years ago by coltonlloyd
  0

• Method to make Escher-compatible JSON

  #5 opened 8 years ago by zakandrewking
  0

• Get translation flux for metabolic reaction

  #4 opened 8 years ago by zakandrewking
  0