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--- readme.renumf90 [2024/05/15 18:37] – [Options] dani
+++ readme.renumf90 [2024/05/22 18:45] – dani
@@ Line 1: / Line 1: @@
 =======RENUMF90======
 A renumbering program for the ''BLUPF90'' family now works with SNP info\\
@@ Line 253: / Line 252: @@
 //r_type// could be:
   * 'data' if covariables for random regressions are in the data
-  * "legendre' if legendre plynomials are to be generated from a single data variable; fully implemented now
+  * "legendre' if legendre polynomials are to be generated from a single data variable; fully implemented now
 <file>
@@ Line 326: / Line 325: @@
 =====Options=====
-The following options can added at the end of the parameter file to redefine
+The following options can be added at the end of the parameter file to redefine
 parameters used to read the input file:
@@ Line 362: / Line 361: @@
 OPTION no_basic_statistics
 </file>
-avoids the computation of basic statistics (min, max, correlations...) which take a certain time for very large data file.
+avoids the computation of basic statistics (min, max, correlations, ...), which take a certain time for very large data file.
 <file>
-OPTION inbreeding_method 1
+OPTION inbreeding_method m
 </file>
-allows choosing a method for inbreeding calculation. The inbreeding coefficients are used later (in the other programs) to set up the coefficients for the A-inverse. Existing options are:
+allows choosing a method for inbreeding calculation. The inbreeding coefficients are used later (in the other programs) to set up the coefficients for the A-inverse. Acceptable values for m are:
-  * 1: Meuwissen and Luo (1992)
+: Meuwissen and Luo (1992)
-  * 2: Modified Meuwissen & Luo by Sargolzaei & Iwaisaki (2004)
+: Modified Meuwissen & Luo by Sargolzaei & Iwaisaki (2004)
-  * 3: Modified Colleau by Sargolzaei et al. (2005)
+: Modified Colleau by Sargolzaei et al. (2005)
-  * 4: recursive tabular method
+: recursive tabular method
-  * 5: method of Tier (1990)
+: method of Tier (1990)
-  * 6: Hybrid parallel computing, which is basically a parallel (OMP) version of Meuwissen and Luo (1992)
+: Hybrid parallel computing, which is basically a parallel (OMP) version of Meuwissen and Luo (1992)
-  * 7: Recursive tabular with self-breeding generations. This method is for populations with selfing, i.e., wheat
+: Recursive tabular with self-breeding generations. For populations with selfing, i.e., wheat
-  *
 The default is method 1. Large speed-ups are made using method 6, but this requires using several threads (e.g., using ''OMP_NUM_THREADS=4'')