Differences

This shows you the differences between two versions of the page.

--- application_programs [2022/05/10 20:48] – dani
+++ application_programs [2022/05/10 21:22] – dani
@@ Line 6: / Line 6: @@
 \\
-**Main programs**
+**Programs available for research (free)**
   * [[readme.blupf90plus|BLUPF90+]] - a combined program of blupf90, remlf90, and airemlf90
   * [[readme.gibbsf90plus|GIBBSF90+]] - a combined program of gibbs1f90, gibbs2f90, gibbs3f90, thrgibbs1f90, and thrgibbs3f90
   * [[readme.postgibbs|POSTGIBBSF90]] - statistics and graphics for post-Gibbs analysis (S. Tsuruta)
   * [[Readme.Renumf90|RENUMF90]] - a renumbering program that also can check pedigrees and assign unknown parent groups; supports large data sets
+  * [[readme.pregsf90|PREGSF90]] – genomic preprocessor that combines genomic and pedigree relationships (I. Aguilar)
+  * [[readme.pregsf90|POSTGSF90]] – genomic postprocessor that extracts SNP solutions after genomic evaluations (single step, GBLUP) (I. Aguilar)
   * [[Readme.pedictf90|PREDICTF90]] - a program to calculate adjusted y, y_hat, and residuals (I. Aguilar)
   * [[Readme.predf90|PREDF90]] - a program to predict direct genomic value (DGV) for animals based on genotypes and SNP solution
@@ Line 17: / Line 19: @@
   * [[Readme.SeekParentf90|SEEKPARENTF90]] -  a program to verify paternity and parent discovery using SNP markers (I. Aguilar)
-Included in application programs
+/*Included in application programs*/
-  * [[readme.pregsf90|PREGSF90]] – genomic preprocessor that combines genomic and pedigree relationships (I. Aguilar)
-  * [[readme.pregsf90|POSTGSF90]] – genomic postprocessor that extracts SNP solutions after genomic evaluations (single step, GBLUP) (I. Aguilar)
-Available by request
+**Available by request**
   * QXPAK - joint analysis of QTL and polygenic effects (M. Perez-Enciso) [[http://www.icrea.cat/Web/OtherSectionViewer.aspx?key=485&titol=Software:Qxpak | QxPak web page]]
   * MRF90 - Method R program suitable for a large data set; contact T. Druet.
@@ Line 27: / Line 27: @@
   * BLUPF90HYP – BLUPF90 with hypothesis testing (F and Chi2 tests) - contact J. P. Sanchez as above
-Available only under research agreement
+**Available only under research agreement**
   * [[readme.pcg2|BLUP90IOD2]] - BLUP by iteration on data with PCG for very large models (S. Tsuruta)
   * BLUP90IOD2RR & BLUP90IOD2HR - BLUP90IOD2 with heterogeneous residual variances (like in GIBBS3F90 & AIREMLF90)
@@ Line 40: / Line 40: @@
   * [[readme.pcgtest|BLUP90IODTEST (new BLUP90IOD)]] - a combined program of BLUP90IOD2, BLUP90IOD2RR, and BLUP90IOD2HR: under test
-Deprecated programs (as of May 2022)
+**Programs no longer updated (as of May 2022)**
   * [[readme.blupf90|BLUPF90]] - BLUP in memory
   * [[readme.reml|REMLF90]] - accelerated EM REML