version 4.6.3

cran · Dec 11, 2023 · 3570974 · 3570974
1 parent e8f0943
commit 3570974
Show file tree

Hide file tree

Showing 5 changed files with 13 additions and 9 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: rrBLUP
 Title: Ridge Regression and Other Kernels for Genomic Selection
-Version: 4.6.2
+Version: 4.6.3
 Author: Jeffrey Endelman 
 Maintainer: Jeffrey Endelman <endelman@wisc.edu>
 Depends: R (>= 4.0)
@@ -9,6 +9,6 @@ Description: Software for genomic prediction with the RR-BLUP mixed model (Endel
 License: GPL-3
 URL: <https://potatobreeding.cals.wisc.edu/software/>
 NeedsCompilation: no
-Packaged: 2023-01-06 13:19:16 UTC; endelman
+Packaged: 2023-12-09 20:44:08 UTC; endelman
 Repository: CRAN
-Date/Publication: 2023-01-06 18:50:32 UTC
+Date/Publication: 2023-12-10 17:10:06 UTC
diff --git a/MD5 b/MD5
@@ -1,15 +1,15 @@
-af56bc0de5be69b6e2a9de768a394bbf *DESCRIPTION
+344385ca7db0830dc9a5c1f11db5f478 *DESCRIPTION
 6d39635a89ceefd16d5eee86b2e0551c *NAMESPACE
-e9c2bdc065ef5e34a5a619e461e2fb77 *NEWS
+2d546dd39382e9b747f331c96cde4ddc *NEWS
 50ccb3ca85692abc5aa87eee8833fbf6 *R/A.mat.R
 db7b0e1640f03742d0a44ca5829558d9 *R/GWAS.R
 f42e2c8db0a184e47c684627a457a542 *R/kin.blup.R
 8337be307fa8255206b4c505abb2a2e5 *R/kinship.BLUP.R
 f0b2d35594029936eff56e0b05cac09b *R/mixed.solve.R
-b74e4e9e2c643e550a83c5ee4eb7e905 *inst/CITATION
+c79901b854bc8471e6ac0db523041139 *inst/CITATION
 0f4883b4930ced50c23c212e55ae7b2b *man/A.mat.Rd
 8873b1be71d10607ffd207d29d03415a *man/GWAS.Rd
 ae1576b1fedf894752b72d4635f76086 *man/kin.blup.Rd
 aeaff872c68712be50b3941de3873b50 *man/kinship.BLUP.Rd
 c2d59e14f73fae955f3cd17eecd6145e *man/mixed.solve.Rd
-6cd32cdbab255c4931b2674c9b529fc3 *man/rrBLUP-package.Rd
+7ad01f9d6f2b401ae298065f8ad03e21 *man/rrBLUP-package.Rd
diff --git a/NEWS b/NEWS
@@ -1,3 +1,6 @@
+Changes in 4.6.3:
+* Header in package overview help file
+
 Changes in 4.6.2:
 * Changed parallel execution in A.mat to use cluster instead of forking
 

diff --git a/inst/CITATION b/inst/CITATION
@@ -1,6 +1,7 @@
 citHeader("To cite the rrBLUP package in publications use:")
 
-citEntry(entry="Article",
+bibentry(
+	bibtype="Article",
 	title="Ridge regression and other kernels for genomic selection with R package rrBLUP",
 	author=as.person("J. B. Endelman"),
 	journal="Plant Genome",

diff --git a/man/rrBLUP-package.Rd b/man/rrBLUP-package.Rd
@@ -1,5 +1,5 @@
 \name{rrBLUP-package}
-\alias{rrBLUP}
+\alias{rrBLUP-package}
 \docType{package}
 \title{Ridge regression and other kernels for genomic selection}
 \description{This package has been developed primarily for genomic prediction with mixed models (but it can also do genome-wide association mapping with \code{\link{GWAS}}). The heart of the package is the function \code{\link{mixed.solve}}, which is a general-purpose solver for mixed models with a single variance component other than the error.  Genomic predictions can be made by estimating marker effects (RR-BLUP) or by estimating line effects (G-BLUP). In Endelman (2011) I made the poor choice of using the letter G to denotype the genotype or marker data.  To be consistent with Endelman (2011) I have retained this notation in \code{\link{kinship.BLUP}}.  However, that function has now been superseded by \code{\link{kin.blup}} and \code{\link{A.mat}}, the latter being a utility for estimating the additive relationship matrix (A) from markers.  In these newer functions I adopt the usual convention that G is the genetic covariance (not the marker data), which is also consistent with the notation in Endelman and Jannink (2012).