COALFACE: a graphical user interface program for the simulation of coalescence

被引：1

作者：

Delport, W ^{[1
]}

机构：

[1] Univ Pretoria, Dept Genet, Mol Ecol & Evolut Programme, ZA-0002 Pretoria, South Africa

来源：

MOLECULAR ECOLOGY NOTES | 2006年 / 6卷 / 01期

关键词：

coalescence; genealogies; simulation;

D O I：

10.1111/j.1471-8286.2005.01139.x

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

In this manuscript, I describe a computer program that simulates the coalescent process and provides visual outputs of coalescent genealogies to the screen. COALFACE is a user-friendly program for teaching the principles of coalescence to both undergraduates and postgraduates in population genetics. In addition, COALFACE can generate data for distributions of the time to the most recent common ancestor, number of segregating sites and common diversity indices, from multiple simulations. Windows and Linux (Intel) executables are available at http://www.up.ac.za/academic/genetics/staff/Bloomer/Research/software.htm.

引用

页码：281 / 284

页数：4

共 20 条

[1] Inference from gene trees in a subdivided population [J].

Bahlo, M ;

Griffiths, RC .

THEORETICAL POPULATION BIOLOGY, 2000, 57 (02) :79-95

[2] Coalescents and genealogical structure under neutrality [J].

Donnelly, P ;

Tavare, S .

ANNUAL REVIEW OF GENETICS, 1995, 29 :401-421

[3]

Edwards SV, 2000, EVOLUTION, V54, P1839

[4] SIMCOAL: A general coalescent program for the simulation of molecular data in interconnected populations with arbitrary demography [J].

Excoffier, L ;

Novembre, J ;

Schneider, S .

JOURNAL OF HEREDITY, 2000, 91 (06) :506-509

[5] EVOLUTIONARY TREES FROM DNA-SEQUENCES - A MAXIMUM-LIKELIHOOD APPROACH [J].

FELSENSTEIN, J .

JOURNAL OF MOLECULAR EVOLUTION, 1981, 17 (06) :368-376

[6] DATING OF THE HUMAN APE SPLITTING BY A MOLECULAR CLOCK OF MITOCHONDRIAL-DNA [J].

HASEGAWA, M ;

KISHINO, H ;

YANO, TA .

JOURNAL OF MOLECULAR EVOLUTION, 1985, 22 (02) :160-174

[7] Generating samples under a Wright-Fisher neutral model of genetic variation [J].

Hudson, RR .

BIOINFORMATICS, 2002, 18 (02) :337-338

[8]

HUDSON RR, 1991, OXF SURV EVOL BIOL, V7, P1

[9]

JUKES T H, 1969, P21

[10] A SIMPLE METHOD FOR ESTIMATING EVOLUTIONARY RATES OF BASE SUBSTITUTIONS THROUGH COMPARATIVE STUDIES OF NUCLEOTIDE-SEQUENCES [J].

KIMURA, M .

JOURNAL OF MOLECULAR EVOLUTION, 1980, 16 (02) :111-120

← 1 2 →