Getting Started With QGERT

library(qgert)

Abstract

The package qgert provides a set of tools that are useful for genetic evaluation routine tasks. The tools are provided as bash scripts or as R-functions.

Installation

The package can be installed from github with

# install.packages("devtools")
devtools::install_github("pvrqualitasag/qgert")

Features

The following features are available in package qgert

1. Comparison Plot Reports: For each trait group comparison plots can be summarized into a report. Please have a look at the specific article on comparison plot reports.
2. Create New Bash Script: new bash scripts can be created using the command: <path-to-rlib>/qgert/bash/new_bash_script.sh -t <path-to-rlib>/qgert/templates/bash/bash_script_so.template where on the ZWS-servers the value for <path-to-rlib> corresponds to /home/zws/lib/R/library.
3. Convert Bash Scripts To HTML: Specially formatted bash scripts can be converted into a static HTML-page. For more details, please have a look at the article on Spinning Bash Scripts.

Problems and Bugs should be reported at https://github.com/pvrqualitasag/qgert/issues.

Session Info

sessioninfo::session_info()
#> ─ Session info ───────────────────────────────────────────────────────────────
#>  setting  value
#>  version  R version 4.2.0 (2022-04-22)
#>  os       macOS Monterey 12.3.1
#>  system   aarch64, darwin20
#>  ui       X11
#>  language en
#>  collate  en_US.UTF-8
#>  ctype    en_US.UTF-8
#>  tz       Europe/Zurich
#>  date     2022-06-27
#>  pandoc   2.17.1.1 @ /Applications/RStudio.app/Contents/MacOS/quarto/bin/ (via rmarkdown)
#> 
#> ─ Packages ───────────────────────────────────────────────────────────────────
#>  package     * version date (UTC) lib source
#>  bslib         0.3.1   2021-10-06 [2] CRAN (R 4.2.0)
#>  cachem        1.0.6   2021-08-19 [2] CRAN (R 4.2.0)
#>  cli           3.3.0   2022-04-25 [2] CRAN (R 4.2.0)
#>  desc          1.4.1   2022-03-06 [2] CRAN (R 4.2.0)
#>  digest        0.6.29  2021-12-01 [2] CRAN (R 4.2.0)
#>  evaluate      0.15    2022-02-18 [2] CRAN (R 4.2.0)
#>  fastmap       1.1.0   2021-01-25 [2] CRAN (R 4.2.0)
#>  fs            1.5.2   2021-12-08 [2] CRAN (R 4.2.0)
#>  htmltools     0.5.2   2021-08-25 [2] CRAN (R 4.2.0)
#>  jquerylib     0.1.4   2021-04-26 [2] CRAN (R 4.2.0)
#>  jsonlite      1.8.0   2022-02-22 [2] CRAN (R 4.2.0)
#>  knitr         1.39    2022-04-26 [2] CRAN (R 4.2.0)
#>  magrittr      2.0.3   2022-03-30 [2] CRAN (R 4.2.0)
#>  memoise       2.0.1   2021-11-26 [2] CRAN (R 4.2.0)
#>  pkgdown       2.0.5   2022-06-23 [2] CRAN (R 4.2.0)
#>  purrr         0.3.4   2020-04-17 [2] CRAN (R 4.2.0)
#>  R6            2.5.1   2021-08-19 [2] CRAN (R 4.2.0)
#>  ragg          1.2.2   2022-02-21 [2] CRAN (R 4.2.0)
#>  rlang         1.0.2   2022-03-04 [2] CRAN (R 4.2.0)
#>  rmarkdown     2.14    2022-04-25 [2] CRAN (R 4.2.0)
#>  rprojroot     2.0.3   2022-04-02 [2] CRAN (R 4.2.0)
#>  rstudioapi    0.13    2020-11-12 [2] CRAN (R 4.2.0)
#>  sass          0.4.1   2022-03-23 [2] CRAN (R 4.2.0)
#>  sessioninfo   1.2.2   2021-12-06 [2] CRAN (R 4.2.0)
#>  stringi       1.7.6   2021-11-29 [2] CRAN (R 4.2.0)
#>  stringr       1.4.0   2019-02-10 [2] CRAN (R 4.2.0)
#>  systemfonts   1.0.4   2022-02-11 [2] CRAN (R 4.2.0)
#>  textshaping   0.3.6   2021-10-13 [2] CRAN (R 4.2.0)
#>  xfun          0.31    2022-05-10 [2] CRAN (R 4.2.0)
#>  yaml          2.3.5   2022-02-21 [2] CRAN (R 4.2.0)
#> 
#>  [1] /private/var/folders/mb/t7z5vr594bq1hfpqyzhmpwpr0000gp/T/RtmpfgO0Dc/temp_libpath1284259e16bf3
#>  [2] /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library
#> 
#> ──────────────────────────────────────────────────────────────────────────────

Latest Update

Sys.time()
#> [1] "2022-06-27 14:09:47 CEST"