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CovertLab / vEcoli Public

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Fork 15
Star 29

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Issues 7
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Kinetic tRNA charging port#305

Open

thalassemia wants to merge 20 commits intomasterCovertLab/vEcoli:masterfrom

trna_charging_finalCovertLab/vEcoli:trna_charging_finalCopy head branch name to clipboard

Conversation Commits20 (20)Checks Files changed

Open

Kinetic tRNA charging port#305
thalassemia wants to merge 20 commits intomasterfrom
trna_charging_final

Commits

Commits on Jan 25, 2026

Port kinetic tRNA charging model
thalassemia
committed
Adjust TU boundaries to contain full genes
thalassemia
committed
Use multiprocessing for tRNA charging optimization
thalassemia
committed
Re-optimize tRNA charging params
thalassemia
committed
Make kinetic tRNA charging deterministic
thalassemia
committed
Add reconciliation buffer to codon sequences
thalassemia
committed
Integer mapping matrix for tRNAs to amino acids
thalassemia
committed
Use correct max timestep
thalassemia
committed
Add params required for polypeptide elongation test
thalassemia
committed
Handle 0 ribosome profiling molecules
thalassemia
committed
Minor fixes in metabolism redux
thalassemia
committed
Add new listeners to dummy analysis
thalassemia
committed
Adjust tRNA synthetase translation efficiencies
thalassemia
committed
Workflow and analysis to regenerate tRNA synthetase dynamic range data
thalassemia
committed
Undo trl eff adjustments
thalassemia
committed
Completely remove aa_exchange_rate units
thalassemia
committed
Leave translation_supply
thalassemia
committed
Ensure integer AA request
thalassemia
committed
Remove aa_exchange_units from metabolism redux to match
thalassemia
committed
Get rid of aa_exchange_rates units when loading JSON state
thalassemia
committed

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