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genepop [2007/12/04 15:50] – heidigenepop [2011/07/07 11:29] (current) – heidi
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 ====== GENEPOP ====== ====== GENEPOP ======
-**[[http://genepop.curtin.edu.au/index.html|GENEPOP]]**\\+**[[http://genepop.curtin.edu.au/genepop_op1.html|GENEPOP]]**\\ 
 +[[http://kimura.univ-montp2.fr/~rousset/Genepop.pdf|documentation]]\\
 [[http://genepop.curtin.edu.au/help_input.html|GENEPOP input file]] [[http://genepop.curtin.edu.au/help_input.html|GENEPOP input file]]
  
 \\ \\
-Genepop 4.0 (released 2007)\\ +Genepop 4.1 (24.03.2011)\\ 
-It computes exact tests for Hardy-Weinberg equilibrium, for population +It computes exact tests for Hardy-Weinberg equilibrium, for population differentiation and for genotypic disequilibrium among pairs of loci;\\ 
-differentiation and for genotypic disequilibrium among pairs of loci;\\ +It computes estimates of F-statistics, null allele frequencies, allele sizebased statistics for microsatellites, etc., and of number of immigrants by Barton & Slatkin's 1986 private allele method;\\ 
-It computes estimates of F-statistics, null allele frequencies, allele size- +It performs analyses of isolation by distance from pairwise comparisons of individuals or population samples, including confidence intervals for "neighborhood size";\\ 
-based statistics for microsatellites, etc., and of number of immigrants +Mantel test
-by Barton & Slatkin's 1986 private allele method;\\ +
-It performs analyses of isolation by distance from pairwise comparisons +
-of individuals or population samples, including con dence intervals for +
-"neighborhood size".+
  
 ===== Program information ===== ===== Program information =====
   * Windows   * Windows
-  * Unix or Linux+  * Linux
   * Mac OSX    * Mac OSX 
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 ===== Data type handled ===== ===== Data type handled =====
   * haploid/diploid   * haploid/diploid
 +  * Microsattelite
 +  * Standard (multi-allelic markers)
      
  
 ===== Input Files ===== ===== Input Files =====
-* **First line:** anything Use this line to store information about your data+  * **First line:** anything Use this line to store information about your data
   * **Locus names:** They may be given one per line, or on the same line but separated by commas. This could be useful to clearly label each column   * **Locus names:** They may be given one per line, or on the same line but separated by commas. This could be useful to clearly label each column
 <code> <code>
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 This example shows some useful features: This example shows some useful features:
   * There is no constraint on the number of blanks separating the various fields   * There is no constraint on the number of blanks separating the various fields
-  * The individual identi er has a free format+  * The individual identifer has a free format
   * Alleles are numbered from 01 to 99 or 001 to 999 if needed. 2-digits and 3-digits coding of alleles can be intermixed (among loci, not within loci!)   * Alleles are numbered from 01 to 99 or 001 to 999 if needed. 2-digits and 3-digits coding of alleles can be intermixed (among loci, not within loci!)
   * To designate alleles, consecutive numbers are not required   * To designate alleles, consecutive numbers are not required
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   * Genotypes can extend on more than one line   * Genotypes can extend on more than one line
   * To group various samples, just remove each relevant Pop separator   * To group various samples, just remove each relevant Pop separator
 +
 +==== constraints: ====
 +  * Missing data should be indicated with 00 (or 000 for 3-digits coding) and not with blanks
 +  * The number of locus names should correspond to the number of genotypes in each individual
 +  * No empty line should be present in the data file
 +  * accepts input file names either with the extension .txt or without any extension
 +  * input files are ASCII text files
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 ===== How to cite ===== ===== How to cite =====
-Raymond M. & Rousset F, 1995. GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J. Heredity, 86:248-249+Rousset F, 2008. GENEPOP'007: a complete re-implementation of the genepop software for Windows and Linux. Molecular Ecology Resources, 1:103-106
  
  
  
genepop.1196779826.txt.gz · Last modified: 2008/07/22 13:30 (external edit)