SysBioChalmers/yeast-GEM

Issues

• Yeast-GEM visualization?

  #367 opened 5 months ago by forxhunter
  3

• reference for irreversible malate dehydrogenase during anaerobic simulation

  #291 opened 4 months ago by mperisin-lallemand
  8

• References for anaerobic benchmarking

  #325 opened 4 months ago by mperisin-lallemand
  11

• non-working BioStudies URL in yeast9 paper

  #370 opened 4 months ago by egonw
  1

• Hardware suggestion

  #366 opened 6 months ago by Danyang95
  1

• reactions r_0533, r_0534, r_0535 appear not balanced

  #358 opened a year ago by charamon
  2

• some memote workflows are failing

  #327 opened a year ago by mihai-sysbio
  3

• feat: Uniprot annotations for all genes

  #320 opened a year ago by edkerk
  5

• bug:spelling error for r_1024 "enxyme"

  #354 opened a year ago by BjornFJohansson
  2

• Proposed changes to the anaerobic model

  #352 opened a year ago by davidhcsic
  2

• feat: function to report if flux vector is ΔG-compatible

  #353 opened a year ago by edkerk
  0

• feat: standardize and simplify curation of yeast-GEM

  #303 opened a year ago by edkerk
  10

• check Lys2 and Leu2 gene associations

  #331 opened a year ago by edkerk
  1

• feat: metSMILES annotation

  #318 opened a year ago by edkerk
  1

• fix: add missing standard-GEM file

  #326 opened a year ago by mihai-sysbio
  0

• Fructose transport is represented as a symporter instead of facilitated diffusion

  #332 opened a year ago by davidhcsic
  0

• unable to locate model when running io.read_yeast_model() in Python

  #340 opened a year ago by qqqtomcat
  1

• Question about ferredoxin iron-sulfur cluster

  #292 opened a year ago by katajar
  3

• Feat-Polyphosphate metabolism

  #295 opened a year ago by feiranl
  1

• feat: volatiles produced by S. cerevisiae

  #296 opened a year ago by feiranl
  6

• duplicate metabolites identified

  #338 opened 2 years ago by feiranl
  1

• reaction references

  #334 opened 2 years ago by mihai-sysbio
  0

• Update according to genome update in 2021

  #328 opened 2 years ago by feiranl
  0

• cerevisiae with radiation simulation is possible?

  #322 opened 2 years ago by nightandweather
  1

• refactor: reduce dependencies modelTests

  #309 opened 2 years ago by edkerk
  1

• feat: single ec-code annotation per reaction

  #319 opened 3 years ago by edkerk
  5

• feat: KEGG pathway annotation

  #317 opened 3 years ago by edkerk
  0

• Feat: A python function for anaerobic condition setup

  #310 opened 3 years ago by feiranl
  1

• Interoperability improvements for `yeast-GEM.mat`

  #308 opened 3 years ago by exaexa
  4

• chore: disable Dependabot, update dependencies with each release instead

  #284 opened 3 years ago by edkerk
  0

• feat: function for reproducible and convenient model curation

  #302 opened 3 years ago by edkerk
  0

• Fix: no flux in TCA when maximizing ATP production

  #265 opened 3 years ago by feiranl
  5

• bug: inconsistency in metabolite identifiers and names between .yml, .txt and .xml files.

  #281 opened 3 years ago by edkerk
  1

• Feat-stoichiometry coefficients for subunits in the enzyme complex

  #297 opened 3 years ago by feiranl
  10

• Fix-amino acid pathways localization

  #294 opened 3 years ago by feiranl
  1

• feat: curate grRules with GPRuler output

  #288 opened 3 years ago by edkerk
  0

• bug: unnecessary invalid BiGG identifiers suggested

  #282 opened 3 years ago by edkerk
  1

• feat: have SLIMEr as option

  #289 opened 3 years ago by edkerk
  0

• doc: tutorial for yeast-GEM

  #286 opened 3 years ago by edkerk
  0

• How to used the ID of metabolites correctly in COBRApy?

  #280 opened 3 years ago by LGJee
  2

• doc: update gh-pages

  #259 opened 3 years ago by edkerk
  5

• What's the expected growth rate of yeast8?

  #275 opened 3 years ago by BeeAnka
  3

• refactor: organize repo as standard-GEM

  #232 opened 3 years ago by edkerk
  13

• fix: cobrapy parsing errors of yaml

  #238 opened 3 years ago by BenjaSanchez
  11

• doc: rename master and devel branches

  #258 opened 3 years ago by edkerk
  1

• fix: wrong annotation for gene YGR191W for rxn r_4590

  #252 opened 3 years ago by feiranl
  0

• fix: Wrong annotation for s_1218

  #254 opened 3 years ago by ZP124875
  0

• fix-bug:yeast8.4.1 cannot grow

  #242 opened 4 years ago by feiranl
  8

• bug: devel branch sbml model cannot be loaded

  #249 opened 4 years ago by feiranl
  2

• fix-update MNX IDs according to MNX database latest release 4.0

  #245 opened 4 years ago by feiranl
  4