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--- readme.gibbs2 [2012/05/30 14:20] – shogo
+++ readme.gibbs2 [2013/07/17 16:28] – shogo
@@ Line 1: / Line 1: @@
 ====== GIBBS2F90 ======
-\\
-Ignacy Misztal, University of Georgia, 3/7/2001
 ===== Summary =====
+Ignacy Misztal, University of Georgia, 3/7/2001
+\\
 Gibbs2f90 is a modification of gibbs1f90 to sample correlated effects jointly. This modification results in better mixing for models with correlated effects such as maternal or random-regression models. Memory requirements and CPU time per round are somewhat higher than in gibbs1f90.
+\\
+See PREGSF90 with genotypes (SNP) for options.
 ===== Running =====
@@ Line 38: / Line 40: @@
 is the number of samples run previously when restarting the program from the last run.
 <file>
-OPTION prior 5
+OPTION prior 5 2 -1 5
 </file>
- is the degree of belief for the priors specified in the parameter file.
+The (co)variance  priors are specified in the parameter file.\\
+Degree of belief for all random effects should be specified using the following structure:\\
+OPTION prior eff1 db1    eff2 db2 ...    effn dbn    -1 dbres\\
+effx correspond to the effect number and dbx to the degree of belief for this random effect, -1 corresponds to the degree of belief of the residual variance.\\
+In this example 2 is the degree of belief for the 5th effect, and 5 is the degree of belief for the residual.\\
 <file>
 OPTION seed 123 321
@@ Line 49: / Line 55: @@
 </file>
 Specify the SNP file name to use genotype data.