Differences

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--- undoc:renumf90 [2020/04/21 06:46] – yutaka
+++ undoc:renumf90 [2020/04/21 07:00] – yutaka
@@ Line 31: / Line 31: @@
 The last 2 columns define groups to that the animal's parents belong.
 You need only 1 group code (either column 4 or 5) with ''group'' and ''group_unisex'', but two groups with ''group_sex''.
+The group code can include any characters.
 ===== With one group code =====
@@ Line 63: / Line 64: @@
     FILE_POS
 2 3 0 0 4 5
+===== Default UPG =====
+There may be animals that are not in the pedigree file.
+For example, some genotyped animals have no pedigree information, and renumf90 puts them as unrelated individuals.
+Such additional individuals have missing parents, that should be replaced by UPGs.
+Because those individuals are not in pedigree and renumf90 does not know which UPGs are suitable, the program assigns a separate UPG code to their parents by default; the same UPG will be assigned for both parents with ''group_unisex'', and separate UPGs with ''group'' and ''group_sex''.
+You can define the default UPG for such individuals that do not appear in the pedigree file.
+Place ''DEFAULT_GROUP'' just after ''UPG_TYPE'' in the parameter file, and put the group code.
+You need 1 group for ''group_unisex'' and ''group'', and 2 groups for ''group_sex''.
+    # for group
+    UPG_TYPE
+    group
+    DEFAULT_GROUP
+    G1
+    # for group_sex
+    UPG_TYPE
+    group_sex
+    DEFAULT_GROUP
+    G1 H1