Hi. After I run the model selector, I recieved 33 models. But I cannot select model 33 to run. Especially Model 33 has nugget and low Aic. Thanks in advance.

I have tried running a SpATS analysis in Mr. Bean on two versions of R: 4.1.3 and 4.2.0. Both give this warning ("Warning: cannot xtfrm data frames"), but the newer version does not allow analysis to continue, while the older version does. This issue is still persisting in 4.2.0 version.

Hi and thanks for the lovely package,
I am just wondering if you have any plans to add the NRM or genomic kinship matrix to the single and multi-sites models.
I think it would be very useful for model convergence in partially replicated designs in practice.

Thanks,
Mohammad

At the moment, it is necessary to select the column of the weights when doing a MET analysis.

It would be nice to be able to leave it empty and use a default (e.g. 1.0) value if nothing is selected. At least for performing a quick analysis using the outputs from previous exported predictions.

I have tried running a SpATS analysis in Mr. Bean on two versions of R: 4.1.3 and 4.2.0. Both give this warning ("Warning: cannot xtfrm data frames"), but the newer version does not allow analysis to continue, while the older version does.

I looked up information about this error, and it is caused by the "order" function - here is a link to a website describing this:It Has Always Been Wrong to Call order on a data.frame

I found in the Mr. Bean source code that order is being called on a data frame for MOD_GBLUP_RESULTS.R at line 140:

140 v <- as.character(BLUPS[order(BLUPS[, indx], decreasing = TRUE), 2])

The above website recommends using the "wrapr" package and calling "orderv()" instead.

in this file, line 14. Should read "breedbase"?

Dear Johan, this is not a bug report but a suggestion. It would be nice to allow the run of experiments with and without spatial coordinates so the MET analysis can be done between a combination of both. Currently, the row and col are mandatory. Maybe tag it as a potential enhancement? Thanks for the great tool!

Eduardo

Thanks again for the nice work!
I have installed the MrBean app from GitHub and the user interface goes alive. However, when i load the data using import Data option from Data -> uplod , it does nothing and it seems Data panel is spinning to load the dataset but no data is shown.
here is a snapshot from the UI

below is my R session info:
sessionInfo()
R version 4.3.3 (2024-02-29 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19045)

Matrix products: default

locale:
[1] LC_COLLATE=English_United States.utf8 LC_CTYPE=English_United States.utf8
[3] LC_MONETARY=English_United States.utf8 LC_NUMERIC=C
[5] LC_TIME=English_United States.utf8

time zone: Europe/Berlin
tzcode source: internal

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] MrBean_2.0.9 shiny_1.8.1

loaded via a namespace (and not attached):
[1] rstudioapi_0.16.0 jsonlite_1.8.8 magrittr_2.0.3 estimability_1.5
[5] magick_2.8.3 nloptr_2.0.3 rmarkdown_2.26 fs_1.6.3
[9] vctrs_0.6.5 memoise_2.0.1 config_0.3.2 minqa_1.2.6
[13] base64enc_0.1-3 rstatix_0.7.2 htmltools_0.5.8 forcats_1.0.0
[17] broom_1.0.5 cellranger_1.1.0 sass_0.4.9 parallelly_1.37.1
[21] bslib_0.6.2 fontawesome_0.5.2 htmlwidgets_1.6.4 desc_1.4.3
[25] testthat_3.2.1 plyr_1.8.9 echarts4r_0.4.5 emmeans_1.10.0
[29] plotly_4.10.4 lubridate_1.9.3 cachem_1.0.8 mime_0.12
[33] lifecycle_1.0.4 pkgconfig_2.0.3 colourpicker_1.3.0 Matrix_1.6-5
[37] R6_2.5.1 fastmap_1.1.1 future_1.33.2 digest_0.6.35
[41] sever_0.0.7 numDeriv_2016.8-1.1 colorspace_2.1-0 reshape_0.8.9
[45] furrr_0.3.1 shinycssloaders_1.0.0 rprojroot_2.0.4 pkgload_1.3.4
[49] shinytoastr_2.2.0 crosstalk_1.2.1 ggpubr_0.6.0 fansi_1.0.6
[53] timechange_0.3.0 httr_1.4.7 abind_1.4-5 compiler_4.3.3
[57] withr_3.0.0 pander_0.6.5 attempt_0.3.1 backports_1.4.1
[61] carData_3.0-5 psych_2.4.3 pkgbuild_1.4.4 broom.mixed_0.2.9.4
[65] ggsignif_0.6.4 MASS_7.3-60.0.1 waiter_0.2.5 tools_4.3.3
[69] formattable_0.2.1 httpuv_1.6.15 glue_1.7.0 nlme_3.1-164
[73] promises_1.2.1 grid_4.3.3 checkmate_2.3.1 bs4Dash_2.3.3
[77] reshape2_1.4.4 generics_0.1.3 gtable_0.3.4 SpATS_1.0-18
[81] tidyr_1.3.1 data.table_1.15.2 sommer_4.3.4 xml2_1.3.6
[85] car_3.1-2 utf8_1.2.4 ggrepel_0.9.5 pillar_1.9.0
[89] shinyalert_3.0.0 stringr_1.5.1 spam_2.10-0 later_1.3.2
[93] rintrojs_0.3.4 splines_4.3.3 dplyr_1.1.4 pryr_0.1.6
[97] lattice_0.22-6 tidyselect_1.2.1 miniUI_0.1.1.1 knitr_1.45
[101] svglite_2.1.3 xfun_0.43 brio_1.1.4 factoextra_1.0.7
[105] rapportools_1.1 matrixStats_1.2.0 DT_0.32 stringi_1.8.3
[109] lazyeval_0.2.2 yaml_2.3.8 boot_1.3-29 shinyWidgets_0.8.3
[113] kableExtra_1.4.0 evaluate_0.23 codetools_0.2-19 tcltk_4.3.3
[117] tibble_3.2.1 cli_3.6.2 xtable_1.8-4 systemfonts_1.0.6
[121] munsell_0.5.0 jquerylib_0.1.4 QBMS_1.0.0 golem_0.4.1
[125] Rcpp_1.0.12 readxl_1.4.3 globals_0.16.3 coda_0.19-4.1
[129] summarytools_1.0.1 parallel_4.3.3 ggplot2_3.5.0 dotCall64_1.1-1
[133] lme4_1.1-35.1 listenv_0.9.1 mvtnorm_1.2-4 viridisLite_0.4.2
[137] lmerTest_3.1-3 scales_1.3.0 crayon_1.5.2 purrr_1.0.2
[141] rlang_1.1.3 mnormt_2.1.1 shinyjs_2.1.0