Discussions

• 1 You must be logged in to vote

  🙏

  get wrong in saveEcmodel

  vivarock233-byte asked Jan 4, 2026 in Q&A · Closed · Answered

  

  

  4
• 1 You must be logged in to vote

  🙏

  getECfromGEM fails in light_ecModel tutorial

  kylo610 asked Jan 4, 2026 in Q&A · Closed · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  GECKO 3.0 on Human cell lines - Questions with parameters and proteomics integration

  h-escoffier asked Dec 18, 2024 in Q&A · Unanswered

  

  

  

  

  3
• 1 You must be logged in to vote

  🙏

  Align kcat assignment hierarchy for reactions with assigned EC numbers

  ZyklotronAI asked Jun 2, 2025 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  >> [ecModel, noUniprot] = makeEcModel(model,false,params); "getParameters" is not to be found

  Wonjoy2023 asked May 9, 2025 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  runDLKcat(): use DLKcat.tsv in a different directory

  PkiwiBird asked Aug 8, 2024 in Q&A · Closed · Answered

  

  

  1
• 2 You must be logged in to vote

  🙏

  No EC number in ec.eccodes although EC is in uniprot.tsv

  PkiwiBird asked Aug 14, 2024 in Q&A · Unanswered

  

  

  1
• 1 You must be logged in to vote

  💡

  Improvement for Protein Usage Calculation in reportEnzymeUsage

  HossFir started Jul 29, 2024 in Ideas

  

  

  2
• 1 You must be logged in to vote

  🙏

  GECKO Model Adapter. Is it possible to define more than one compartment with the parameter 'obj.params.enzyme_comp' ?

  Zyklotron42 asked Jul 18, 2024 in Q&A · Answered

  

  

  3
• 2 You must be logged in to vote

  3️⃣

  Clarification on the flexibilizeEnzConcs Function and Its Impact on Enzyme Concentrations and kcat Values

  HossFir started Jul 5, 2024 in GECKO3

  

  

  0
• 1 You must be logged in to vote

  🙏

  runDLKcat() cannot find path to data

  PkiwiBird asked May 19, 2024 in Q&A · Answered

  

  

  

  

  7
• 1 You must be logged in to vote

  🙏

  What should uniprot.geneIDfield be for NCBI Gene identifiers

  PkiwiBird asked Mar 19, 2024 in Q&A · Closed · Answered

  

  

  

  

  8
• 2 You must be logged in to vote

  🙏

  genes reported in noUniprot can actually be found in data/uniprot.tsv

  PkiwiBird asked May 19, 2024 in Q&A · Answered

  

  

  3
• 1 You must be logged in to vote

  3️⃣

  ecFSEOF Output Interpretation GECKO 3.1.3

  HossFir started Apr 30, 2024 in GECKO3

  

  

  1
• 1 You must be logged in to vote

  🙏

  why error using loadDatabases when internet is working

  PkiwiBird asked Mar 24, 2024 in Q&A · Answered

  

  

  2
• 1 You must be logged in to vote

  🙏

  Source of data for spontaneousReactions.tsv in HumanGEMAdapter.m

  PkiwiBird asked Mar 22, 2024 in Q&A · Closed · Unanswered

  

  

  1
• 1 You must be logged in to vote

  🙏

  How to deal with version of gene id in modeladapter file, obj.params.kegg.geneID ?

  PkiwiBird asked Feb 14, 2024 in Q&A · Answered

  

  

  9
• 1 You must be logged in to vote

  3️⃣

  Help: ComplexData for Non-Model Organism

  HossFir started Jan 24, 2024 in GECKO3

  

  

  5
• 1 You must be logged in to vote

  3️⃣

  format of customKcats.tsv with and/or relations

  help

  HossFir started Jan 23, 2024 in GECKO3

  

  

  1
• 1 You must be logged in to vote

  3️⃣

  ecFSEOF implementation in GECKO 3.1.2

  JBiaggi started Dec 5, 2023 in GECKO3

  

  

  

  

  3
• 1 You must be logged in to vote

  🙏

  Changes in ecFSEOF: GECKO 2.0 -> 3.0

  JBiaggi asked Sep 18, 2023 in Q&A · Answered

  

  

  2
• 1 You must be logged in to vote

  🙏

  What is params.c_UptakeExp?

  wshao1 asked Sep 5, 2023 in Q&A · Unanswered

  

  

  0
• 1 You must be logged in to vote

  🙏

  DLKcat Docker reference format error

  wshao1 asked Aug 23, 2023 in Q&A · Closed · Answered

  

  

  1
• 1 You must be logged in to vote

  🙏

  Integration of proteomics data

  alinarekena asked Jul 27, 2023 in Q&A · Unanswered

  

  

  2
• 2 You must be logged in to vote

  3️⃣

  ecFactory as part of GECKO

  enhancement question

  ae-tafur started Apr 5, 2023 in GECKO3

  

  

  2