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--- readme.renumf90 [2016/10/13 22:02] – [Fields in the parameter file] ignacio
+++ readme.renumf90 [2018/04/09 23:33] – [Fields in the parameter file] shogo
@@ Line 259: / Line 259: @@
 </file>
 //gmpe// are (co)variances for the MPE effect if present
+==== User-defined UPG code ====
+The program accepts the following keywords in ''UPG_TYPE''.
+    UPG_TYPE
+    group
+    or
+    UPG_TYPE
+    group_unisex
+With this option, the program looks at a particular column in the pedigree file as a group code and saves it. If an animal has a missing parent, the program assigns an UPG code according to the group code. If you want to assign separate UPGs by the parent's sex (sire or dam), use ''group''. The ''group_unisex'' doesn't consider the sex of parents.
+The column in the pedigree file is specified with the 6th item in ''FILE_POS''. The following example tells the program the 5th column in the pedigree file as the group code. The group code will be treated as characters.
+    FILE_POS
+2 3 0 0 5
+The program now accept 3 items, 5 items, or 6 items in ''FILE_POS''.
 =====Extra comments=====
@@ Line 339: / Line 364: @@
       if animal has genotype 10+number of know parents
 ) number of records
-) number of progenies (before elimination due to other effects) as parent 1
+) number of progeny (before elimination due to other effects) as parent 1
-) number of progenies (before elimination due to other effects) as parent 2
+) number of progeny (before elimination due to other effects) as parent 2
 ) original animal id