Team:Paris Bettencourt/Software

Ferment It Yourself

iGEM Paris-Bettencourt 2O15

• Background
• Design
• Project
  Micronutrients
  Continuity
  Modeling
  Manufacturing
• Achievements
  Results
  Parts
  Medal Fulfillments
• Practices
  Overview
  SynBio Challenge
  DIλ
  Acceptance
  Events
  Rhizi
  Collaborations
• Safety
  Safety Overview
  Safety Form
  Review Board
• Notebook
  Daily notebook
  Protocols
  Bibliography
• Team
  Members
  Attributions
  Acknowledgments
  Press
  Official Team Profile

Modeling

Introduction

Files

Input

Cells input

Random initial position

Non random initial position

Rate constant

Fermentation period

Action

Folder name

Output

Raw data

• mainTic
• mc0
• dc0
• pasDistributionTimeEvent
• frameRate
• timeShowPopulation
• simulationTime
• resultFolderName
• muT1
• sigmaT1
• muT2
• sigmaT2
• muT3
• sigmaT3
• k4
• cVitamin
• time
• createFolder
• showPopulationBool
• plotGraph
• input
• cTime1
• cTime2
• cTime3
• counterEvent
• timerShow
• sizeMat
• time1Array
• time2Array
• time3Array
• cell
• sizeMatCell
• nextEvent
• timeNextEvent
• saveTime
• saveNbrMC
• saveNbrDC
• saveNbrVitamin
• folderName
• imgType
• maxMC
• maxDC
• maxVitamin
• timeSpent

Folder creation

Graphs

Animation

Examples

Time evolution of mother cells, differentiated cells and vitamin

Graphs

Animation

Vitamin optimization

Deterministic and stochastic vitamin optimization comparison

Programm explanation

Step by step

Parallel computing

Conclusion