CONVERT

version 1.31 (March 2005)
CONVERT is a user-friendly, 32-bit Windows program that facilitates ready transfer of co-dominant, diploid genotypic data amongst commonly used population genetic software packages.

• Windows 95/98/NT/2000/XP

• co-dominant, diploid genotypic data
• Microsat
• RFLP
• SNP (numeric)
• Standard
• AFLP

• GENEPOP
• Excel file:
  • first line (cell A1): brief description of the data file
  • second line (cell A2): number of populations present in the data file (e.g.: npops = 2)
  • third line (cell A3): number of loci (e.g.: nloci = 7)
  • fourth line: names of the loci (in order, without spaces, underscores are allowed)
  • Each population starts with the line pop = pop_name (there must be at least one space between 'pop' and '=', no spaces within population name, underxcores are allowed)
  • Each individual within a population begins with an individual name (can be numeric, not allowed: '/', '=', '?', ':', ';' or ',', no spaces within names)
  • After an individual’s name, the diploid genotypes are given for that individual:
    • on the same line or wrapped to the next line
    • alleles must be given in numeric form (two alleles for each locus)
    • They can be any integer between 1 and 9999
    • Typically the numbers will indicate the size of the allele in base pairs (e.g., for microsats)
    • Missing data: '?'
  • Creating a text input file from the EXCEL file: 'File|Save As…' in EXCEL. Save the file as: 'Text(Tab delimited)(*.txt)'
  • example:

    Canucks vs Yanks for the Ice Hockey gold - Salt Lake City 2002	
    						
    npops = 2														
    nloci = 4														
    	SSR01		SSR02		SSR03		SSR04		
    pop = Canadian_Team					 	 	
    		
    Lemieux	239	245	204	222	169	185	180	206	
    Sakic	241	247	216	238	195	195	174	198	
    Fleury	?	?	224	224	175	189	160	218	
    Kariya	229	239	226	240	181	203	182	194	
    Yzerman	223	239	224	226	191	195	174	180	
    Lindros	237	245	222	226	179	193	194	222	
    pop = American_Team							
    	
    Chelios	235	243	216	226	179	183	172	218	
    Leetch	235	239	208	216	179	191	198	208	
    Suter	237	241	222	224	185	197	166	192	
    Housley	?	?	212	228	183	191	184	218	
    Hatcher	237	241	222	222	173	187	160	198	
    Amonte	235	245	226	230	181	181	178	192	

• GDA
• GENEPOP
• Arlequin
• POPGENE
• MICROSAT
• PHYLIP
• STRUCTURE
• can produce a summary table of allele frequencies in which private alleles and the sample sizes at each locus are indicated

Glaubitz J.C. (2004) CONVERT: A user-friendly program to reformat diploid genotypic data for commonly used population genetic software packages. Molecular Ecology Notes 4: 309-310.