Differences

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--- faq [2012/05/10 19:48] – created ignacy
+++ faq [2012/05/28 13:45] – shogo
@@ Line 1: / Line 1: @@
-FAQ for BLUPF90 programs
+======  FAQ for BLUPF90 programs ======
-Input files
-    data
+==== Input files ====
-    pedigree
-Data preparation program
-    renumf90 (ver 1.92) read me
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_data.html|data]]
-    examples
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_pedigree.html|pedigree]]
-Frequent mistakes in a parameter file for BLUPF90 programs
+==== Data preparation program ====
-    parameter files for various models
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_renum.html|renumf90 (ver 1.98)]]
-    examples
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_para_renum.html|examples]]
-REML
+==== Frequent mistakes in a parameter file for BLUPF90 programs ====
-    remlf90 (ver 1.76) read me: EM algorithm - PDF
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_param.html|parameter files for various models]]
-    airemlf90 (ver 1.99) read me: Average Information REML + REMLF90 - Standard Errors (PDF)
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_parameter.html|examples]]
-Gibbs sampling
+==== REML ====
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_reml.html|remlf90 (ver 1.76)]]: EM algorithm
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_aireml.html|airemlf90 (ver 1.101)]]: Average Information REML + REMLF90 - [[http://nce.ads.uga.edu/html/projects/AI_SE.pdf|Standard Errors (PDF)]]
+==== Gibbs sampling ====
 OPTIONs for priors and degrees of belief, for restarting from the last sampling, and for storing solutions and SD with or without fixed variances
-    gibbs1f90 (ver 1.42) read me: Faster than GIBBS2F90 without missing traits
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_gibbs1.html|gibbs1f90 (ver 1.43)]]: Faster than GIBBS2F90 without missing traits
-    gibbs2f90 (ver 1.76) read me
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_gibbs2.html|gibbs2f90 (ver 1.81)]]
-    gibbs3f90 (ver 1.77) read me: Heterogeneous residual variances
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_gibbs3.html|gibbs3f90 (ver 1.79)]]: Heterogeneous residual variances
-    thrgibbs1f90(b) (ver 2.100) read me: Threshold model + linear model
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_thrgibbs1.html|thrgibbs1f90(b) (ver 2.102)]]: Threshold model + linear model
+==== Post-Gibbs Analysis ====
-Post-Gibbs Analysis
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_postgibbs.html|postgibbsf90 (ver 3.04)]]: Needs Gibbs samples and gnuplot (use postgibbsold for old Gibbs sampler programs)
-    postgibbsf90 (ver 3.02) read me: Needs Gibbs samples and gnuplot (use postgibbsold for old Gibbs sampler programs)
+==== BLUP ====
-BLUP
+    * [[readme.blupf90|blupf90]]: BLUP with SOR, FSPAK or PCG
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_blup.html|blupf90 (ver 1.45)]]
+    * [[readme.pcg2|blup90iod2]]: BLUP for a large number of equations (available only under some conditions)
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_pcg2.html|blup90iod2 (ver 3.81)]]
+    * [[readme.thr1pcg|cblup90iod]]: BLUP with threshold model + linear model for a large number of equations (available only under some conditions)
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_cblup90iod2.html|cblup90iod2 (ver 3.17)]]
-    blupf90 (ver 1.45) read me: SOR, FSPAK or PCG - PDF
+==== Accuracy ====
-    blup90iod2 (ver 3.78) read me: For a large number of equations (available only under some conditions)
-    cblup90iod2 (ver 3.16) read me: Threshold model + linear model for a large number of equations (available only under some conditions)
-Accuracy
+    * [[readme.acc|accf90]]: Accuracy (reliability) for a large number of animals (available only under some conditions)
+    * [[http://nce.ads.uga.edu/html/projects/FAQ_acc.html|accf90 (ver 1.66)]]
-    accf90 : (ver 1.63) read me: Accuracy (reliability) for a large number of animals (available only under some conditions)
+==== Genomic Analysis ====
-Genomic Analysis
+    * [[readme.pregsf90|PreGSF90]]: Pre-analysis of genomic programs
-    preGSf90 (ver 1.6) read me: Pre-analysis of genomic programs