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--- readme.pcg2 [2012/05/30 14:08] – shogo
+++ readme.pcg2 [2016/10/21 22:17] – [Options] shogo
@@ Line 1: / Line 1: @@
-====== BLUP90IOD2======
+====== BLUP90IOD2 ======
-\\
-The original program was written by Shogo Tsuruta in 1999.
-===== Summary=====
+===== Summary =====
+The original program was written by Shogo Tsuruta in 1999.
+\\
 BLUP90IOD2 is a BLUP program for solving a large number of mixed model equations, using preconditioned conjugate gradient (PCG). Another version for heterogeneous residual variances is also available.
+\\
+See PREGSF90 with genotypes (SNP) for options.
+\\
+Implementation of one-step genomic selection updating animal effects with the combined pedigree and genomic relationship matrix (H-Inverse).
 ====== Options ======
@@ Line 44: / Line 48: @@
 To restart the program from the previous solutions.
 <file>
-OPTION missing -1
+OPTION missing -999
 </file>
-Set the missing value (default 0).
+Set the missing value (default 0) in integer.
 <file>
 OPTION restart 100
@@ Line 60: / Line 64: @@
 Set the UPG random. "1" the weight for random UPG = 1. If the second number exits, the weight will be inverted (e.g., 1/2=0.5).
 <file>
-OPTION SNP_file snps
+OPTION SNP_file snp
 </file>
-implement one-step genomic selection updating animal effects with genomic relationship matrix (H-Inverse).
+Specify the SNP file name to use genotype data.
+\\
 //For information on availability of BLUP90IOD, please contact Ignacy Misztal (ignacy@uga.edu) at the University of Georgia.//