The impact of sampling schemes on the site frequency spectrum in nonequilibrium subdivided populations T Städler, B Haubold, C Merino, W Stephan, P Pfaffelhuber Genetics 182 (1), 205-216, 2009 | 230 | 2009 |

Convergence in distribution of random metric measure spaces (Λ-coalescent measure trees) A Greven, P Pfaffelhuber, A Winter Probability Theory and Related Fields 145 (1-2), 285-322, 2009 | 222 | 2009 |

The infinitely many genes model for the distributed genome of bacteria F Baumdicker, WR Hess, P Pfaffelhuber Genome biology and evolution 4 (4), 443-456, 2012 | 131 | 2012 |

Estimating mutation distances from unaligned genomes B Haubold, P Pfaffelhuber, M Domazet-Los˘ o, T Wiehe Journal of Computational Biology 16 (10), 1487-1500, 2009 | 106 | 2009 |

mlRho–a program for estimating the population mutation and recombination rates from shotgun‐sequenced diploid genomes B Haubold, P Pfaffelhuber, M Lynch Molecular ecology 19, 277-284, 2010 | 103 | 2010 |

`andi`: Fast and accurate estimation of evolutionary distances between closely related genomesB Haubold, F Klötzl, P Pfaffelhuber Bioinformatics 31 (8), 1169-1175, 2015 | 96 | 2015 |

An approximate sampling formula under genetic hitchhiking A Etheridge, P Pfaffelhuber, A Wakolbinger | 84 | 2006 |

Tree-valued Fleming–Viot dynamics with mutation and selection A Depperschmidt, A Greven, P Pfaffelhuber | 70 | 2012 |

The process of most recent common ancestors in an evolving coalescent P Pfaffelhuber, A Wakolbinger Stochastic Processes and their Applications 116 (12), 1836-1859, 2006 | 63 | 2006 |

Tree-valued resampling dynamics martingale problems and applications A Greven, P Pfaffelhuber, A Winter Probability Theory and Related Fields 155 (3-4), 789-838, 2013 | 61 | 2013 |

Marked metric measure spaces A Depperschmidt, A Greven, P Pfaffelhuber | 53 | 2011 |

Linkage disequilibrium under genetic hitchhiking in finite populations P Pfaffelhuber, A Lehnert, W Stephan Genetics 179 (1), 527-537, 2008 | 47 | 2008 |

The diversity of a distributed genome in bacterial populations F Baumdicker, WR Hess, P Pfaffelhuber | 41 | 2010 |

How often does the ratchet click? Facts, heuristics, asymptotics A Etheridge, P Pfaffelhuber, A Wakolbinger Trends in stochastic analysis 353, 365-390, 2009 | 38 | 2009 |

The tree length of an evolving coalescent P Pfaffelhuber, A Wakolbinger, H Weisshaupt Probability theory and related fields 151, 529-557, 2011 | 34 | 2011 |

Classification of phenotypic subpopulations in isogenic bacterial cultures by triple promoter probing at single cell level JP Schlüter, P Czuppon, O Schauer, P Pfaffelhuber, M McIntosh, A Becker Journal of Biotechnology 198, 3-14, 2015 | 33 | 2015 |

Selective sweeps for recessive alleles and for other modes of dominance G Ewing, J Hermisson, P Pfaffelhuber, J Rudolf Journal of mathematical biology 63 (3), 399-431, 2011 | 30 | 2011 |

Alignment-free estimation of nucleotide diversity B Haubold, FA Reed, P Pfaffelhuber Bioinformatics 27 (4), 449-455, 2011 | 30 | 2011 |

Genome-wide linkage-disequilibrium profiles from single individuals M Lynch, S Xu, T Maruki, X Jiang, P Pfaffelhuber, B Haubold Genetics 198 (1), 269-281, 2014 | 28 | 2014 |

The ancestral selection graph under strong directional selection C Pokalyuk, P Pfaffelhuber Theoretical population biology 87, 25-33, 2013 | 26 | 2013 |