Supplementary code for M Dobrzyński & FJ Bruggeman, Elongation dynamics shape bursty transcription and translation, PNAS, 2009 (link).

Analyze bursts in interarrival times. Last modification: 30 March 2018

Authors: M Dobrzyński, Centre for Mathematics and Computer Science (CWI), Amsterdam, The Netherlands

Content of the directory:

• burster - C code for Gillespie simulation of the basic burst-generating model
• slide - C code for Gillespie simulation of motor protein progression along the polymer chain
• matlab - Matlab scripts
  • mdloghist.m - a Matlab script to produce histograms with logarithmic binning
  • mdburstsz.m - a Matlab script to generate the burst size function
• R - an Rstudio project
  • calcBurstSzFn.R - an R function to generate the burst size function
  • analyzeBursts.Rmd - an R notebook that demonstrates burst analysis using the example dataset
• example-data-1 - an example dataset generated with ./burster.x 1 10000 1 0 0.1 0.1 10 1