Description Usage Arguments Value Examples
View source: R/in_silico_system.R
Adds a gene in the in silico system with specified parameters if provided, or with parameters sampled according to the system parameters.
1 2 3 4 5 6 7 8 9 |
insilicosystem |
The in silico system (see |
coding |
String. The coding status of the gene (either "PC" for protein-coding or "NC" for noncoding). If none provided, randomly chosen according to the
parameter |
TargetReaction |
String. The biological function of the gene, i.e. the gene expression step targeted by the active product
of the gene. If none provided, randomly chosen according to the parameters |
TCrate |
Numeric. The transcription rate of the gene. If none provided, randomly chosen according to the
parameter |
TLrate |
Numeric. The translation rate of the gene. If none provided, randomly chosen according to the
parameter |
RDrate |
Numeric. The RNA decay rate of the gene. If none provided, randomly chosen according to the
parameter |
PDrate |
Numeric. The protein decay rate of the gene. If none provided, randomly chosen according to the
parameter |
The modified in silico system.
1 2 3 4 5 6 7 | mysystem = createInSilicoSystem(G = 5)
mysystem$genes
mysystem2 = addGene(mysystem, "PC", "TC", TCrate = 0.0001, TLrate = 0.001)
mysystem2$genes
mysystem3 = addGene(mysystem2)
mysystem3$genes
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