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--- readme.blupf90 [2012/05/28 14:34] – shogo
+++ readme.blupf90 [2012/05/30 14:16] – shogo
@@ Line 1: / Line 1: @@
-The documentation for blupf90 is available separately as a PDF document.
+====== BLUPF90 ======
-The following lines can be added at the end of parameter file for blupf90:
-Available options:
+The documentation for blupf90 is available separately as a {{:blupf90.pdf|PDF}} document.
+===== Options =====
+<file>
 OPTION conv_crit 1e-12
+</file>
-    Set convergence criteria (deault 1e-12).
+Set convergence criteria (deault 1e-12).
+<file>
 OPTION maxrounds 10000
+</file>
-    Set maximum number of rounds (default 1000).
+Set maximum number of rounds (default 1000).
+<file>
 OPTION solv_method FSPAK
+</file>
-    Selection solutions by FSPAK, SOR or PCG (default PCG).
+Selection solutions by FSPAK, SOR or PCG (default PCG).
+<file>
 OPTION r_factor 1.6
+</file>
-    Set relaxation factor for SOR (default 1.4).
+Set relaxation factor for SOR (default 1.4).
+<file>
 OPTION sol se
+</file>
-    Store solutions and s.e.
+Store solutions and s.e.
+<file>
 OPTION missing -999
+</file>
-    Missing observation (default 0).
+Missing observation (default 0).
+<file>
 OPTION residual
+</file>
-    y-hat and residual will be shown in yhat_residual.
+y-hat and residual will be included in "yhat_residual".
+<file>
 OPTION blksize 3
+</file>
-    Set block size for preconditioner (default 1).
+Set block size for preconditioner (default 1).
+<file>
+OPTION prior_solutions
+</file>
+Using the previous solution file to start the iteration. An additional software is required to use this option.
+<file>
+OPTION stdresidual
+</file>
+y-hat and student residuals will be included in "yhat_student_residual".
+<file>
+OPTION check_levels 0
+</file>
+Check levels (default 1 = true).
+<file>
 OPTION SNP_file snp
+</file>
-    Specify the SNP file name to use genotype data.
+Specify the SNP file name to use genotype data.