Data from: Within-host stochastic emergence dynamics of immune-escape mutants

Hartfield M, Alizon S

Date Published: March 23, 2015



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Title HartfieldAlizon2015_WithinHost_SimCode
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Description README.TXT FOR SIMULATION FILES This file is the source code for the emergence simulations used in the Hartfield and Alizon 2015 paper "Within-host stochastic dynamics of immune-escape mutants". Simulations are written in C and need to be compiled prior to execution. See blurb at start of each program for description and how to execute. Please also note that simulations use routines that are part of the GNU Scientific Library (GSL). Since GSL is distributed under the GNU General Public License (, you must download it separately from these files. Comments should be sent to Matthew Hartfield (
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When using this data, please cite the original publication:

Hartfield M, Alizon S (2015) Within-host stochastic emergence dynamics of immune-escape mutants. PLOS Computational Biology 11(3): e1004149.

Additionally, please cite the Dryad data package:

Hartfield M, Alizon S (2015) Data from: Within-host stochastic emergence dynamics of immune-escape mutants. Dryad Digital Repository.
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