A generalized Watterson estimator for next-generation sequencing : from trios to autopolyploids
Ferretti, Luca (Université Pierre et Marie CURIE)
Ramos-Onsins, Sebastian (Centre de Recerca en Agrigenòmica)

Date:	2015
Abstract:	Several variations of the Watterson estimator of variability for Next Generation Sequencing (NGS) data have been proposed in the literature. We present a unified framework for generalized Watterson estimators based on Maximum Composite Likelihood, which encompasses most of the existing estimators. We propose this class of unbiased estimators as generalized Watterson estimators for a large class of NGS data, including pools and trios. We also discuss the relation with the estimators proposed in the literature and show that they admit two equivalent but seemingly different forms, deriving a set of combinatorial identities as a byproduct. Finally, we give a detailed treatment of Watterson estimators for single or multiple autopolyploid individuals.
Grants:	Ministerio de Economía y Competitividad AGL2013-41834-R Ministerio de Ciencia e Innovación CGL2009-09346 Ministerio de Educación y Ciencia CSD2007-00036
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, i la comunicació pública de l'obra, sempre que no sigui amb finalitats comercials, i sempre que es reconegui l'autoria de l'obra original. No es permet la creació d'obres derivades.
Document:	Article
Subject:	Site frequency spectrum ; Population genetics ; Summary statistics ; Maximum likelihood ; Composite likelihood
Published in:	Theoretical population biology, Vol. 100 (March 2015), p. 79-87, ISSN 0040-5809

Post-print 25 p, 1.2 MB

The record appears in these collections:
Research literature > UAB research groups literature > Research Centres and Groups (research output) > Experimental sciences > CRAG (Centre for Research in Agricultural Genomics)
Articles > Research articles
Articles > Published articles