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SSAandFSPexample
SSAandFSPexample Public"How to" on running the SSA and FSP in Julia applied to genetic auto-regulation. Also, gives a short review of parameter inference using MLE and Bayesian methods.
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Detailed-nRNA-Model
Detailed-nRNA-Model PublicStochastic simulation code for a detailed model of nascent RNA production in a cell, including delayed degradation time, gene replication, gene dosage compensation and cell division.
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Tanouchi-inference
Tanouchi-inference PublicWe show using maximum likelihood inference (in Julia) that bacterial proteins are kept at an approximate homeostasis.
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Ising
Ising PublicHere we detail the code necessary for the implementation of the analytic time-dependent solution of the mean-field Ising model. One can show using this code that the solution is correct compared to…
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BinaryDecisionModel
BinaryDecisionModel PublicCode for the time-dependent analytic solution of the mean-field binary decision model. Includes Monte Carlo verification of the solution, as well as ability to conduct model calibration via MLE.
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Delayed-SSA-Models
Delayed-SSA-Models PublicAllows one to simulate the delayed stochastic simulation algorithm (in Julia) for the mechanistic and delayed-telegraph models of gene expression in https://www.biorxiv.org/content/10.1101/2021.06.…
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12 contributions in the last year
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Contribution activity
March 2024
Created 1 commit in 1 repository
Created 1 repository
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jamesholehouse/thermo-gene-expression
This contribution was made on Mar 24