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--- convert [2007/12/20 13:49] – created heidi
+++ convert [2008/09/10 13:26] (current) – heidi
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-====== Convert ======
+====== CONVERT ======
+[[http://www.agriculture.purdue.edu/fnr/html/faculty/Rhodes/Students%20and%20Staff/glaubitz/software.htm|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.
 ===== Program information =====
+  * Windows 95/98/NT/2000/XP
 ===== Data type handled =====
+  * co-dominant, diploid genotypic data
+  * Microsat
+  * RFLP
+  * SNP (numeric)
+  * Standard
+  * AFLP
 ===== Input (read) formats =====
+  * [[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: <code>
+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
+</code>
-===== outfile (write) formats =====
-===== How to cite =====
+===== Outfile (write) formats =====
+  * [[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
+===== How to cite =====
+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.