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Supplemental Material for Holmes, 2020

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dataset
posted on 05.10.2020 by Ian Holmes
info.txt - Overview file
fsm/general.json - Machine Boss JSON file describing model F in the paper (Figure 2a)
fsm/asym.json - Machine Boss JSON file describing model G in the paper (Figure 2b)
fsm/general-asym.json - Machine Boss JSON file describing model FG in the paper (Figure 2c)
fsm/Makefile - Makefile to build Mathematica, LaTeX, and GraphViz representations of transition matrix for FG
fsm/json2matrix.js - Short JavaScript program to eliminate redundant states from FG
general.nb - Mathematica notebook implementing calculations described in the paper

History

Article title

A Model of Indel Evolution by Finite-State, Continuous-Time Machines

Manuscript #

GENETICS/2020/303630

Article DOI

10.1534/genetics.120.303630

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