From bb157895c058e7dec1723085190c9c4c497483b7 Mon Sep 17 00:00:00 2001 From: Julian Stamp Date: Thu, 21 Sep 2023 18:46:25 -0400 Subject: [PATCH] MM-116 new version for CRAN upload (#108) * MM-116 new version for CRAN upload * MM-116 wording for google search --- NEWS.md | 3 +++ README.md | 2 ++ vignettes/mvMAPIT.Rmd | 8 ++++---- 3 files changed, 9 insertions(+), 4 deletions(-) diff --git a/NEWS.md b/NEWS.md index 4229f9d..c61ab4a 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,8 +1,11 @@ # mvMAPIT (development version) +# mvMAPIT 2.0.2 release + * Added Cauchy combination test `cauchy_combined` including vignette that compares combination methods * `simulate_traits` now returns genotype matrix with causal epistatic variants named according to the trait they affect * Added progress bar and possibility to interrupt C++ routine using `RcppProgress` +* Fixed "incorrect number of dimensions" error in `simulate_data.R` # mvMAPIT 2.0.1 release diff --git a/README.md b/README.md index 7f92cc1..17ff31f 100644 --- a/README.md +++ b/README.md @@ -12,6 +12,8 @@ Find the full package documentation including examples and articles here: [Multi This R package is a generalization of the [MAPIT implementation](https://github.com/lorinanthony/MAPIT) by Crawford et al. (2017)[^1] for any number of traits as described by Stamp et al. (2023)[^2]. +The univariate MAPIT test for marginal epistasis is implemented as the special +case of running multivariate MAPIT with a single trait. mvMAPIT is implemented as a set of R and C++ routines, which can be carried out within an R environment. diff --git a/vignettes/mvMAPIT.Rmd b/vignettes/mvMAPIT.Rmd index a41f6c2..382a895 100644 --- a/vignettes/mvMAPIT.Rmd +++ b/vignettes/mvMAPIT.Rmd @@ -1,12 +1,12 @@ --- -title: "Illustrating mvMAPIT with Simulated Data" +title: "Illustrating multivariate MAPIT with Simulated Data" author: "Julian Stamp" date: "`r Sys.Date()`" output: rmarkdown::html_vignette description: > - Learn how to analyze data with mvMAPIT. + Learn how to test quantitative traits and genetics data for epistasis with multivariate MAPIT. vignette: > - %\VignetteIndexEntry{Illustrating mvMAPIT with Simulated Data} + %\VignetteIndexEntry{Illustrating multivariate MAPIT with Simulated Data} %\VignetteEngine{knitr::rmarkdown} %\VignetteEncoding{UTF-8} --- @@ -23,7 +23,7 @@ library(knitr) ### Please Cite Us -If you use mvMAPIT in published research, please cite: +If you use multivariate MAPIT in published research, please cite: > * Crawford L, Zeng P, Mukherjee S, & Zhou X (2017). Detecting epistasis > with the marginal epistasis test in genetic mapping studies of quantitative