How to solve Error in ggplot could not find function "+<-"?
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nattzy94 ▴ 20
@nattzy94-23466
Last seen 2.0 years ago
Singapore

Hi,

I am running gene set enrichment analysis on R using the fgsea package and plotting the results using ggplot. The main code for plotting the results is as follows:

ggplot(fgseaRes_sig, aes(reorder(pathway, NES), NES)) +
    geom_col(aes(fill=padj<0.1)) + 
    coord_flip() + 
    labs(x="Pathway", y="Normalized Enrichment Score",
         title=fig_title) + 
    theme_minimal() + 
    theme(axis.text.y = element_text(colour = a))

I ran this code previously and it worked fine. However, when I run it now, it gives the following error:

Error in ggplot(fgseaRes_sig, aes(reorder(pathway, NES), NES)) + geom_col(aes(fill = padj <  : 
  could not find function "+<-"

It seems that ggplot doesn't get that I want to use the comparator '<'? And it's confusing it for a tidyverse function perhaps?

Here is my sessionInfo():

sessionInfo()
R version 4.1.1 (2021-08-10)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Catalina 10.15.6

Matrix products: default
BLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
 [1] data.table_1.14.0 fgsea_1.21.0      forcats_0.5.1     stringr_1.4.0     dplyr_1.0.7      
 [6] purrr_0.3.4       readr_2.0.1       tidyr_1.1.3       tibble_3.1.4      ggplot2_3.3.5    

loaded via a namespace (and not attached):
 [1] tidyselect_1.1.1     haven_2.4.3          lattice_0.20-45      colorspace_2.0-2    
 [5] vctrs_0.3.8          generics_0.1.0       utf8_1.2.2           rlang_0.4.12        
 [9] pillar_1.6.3         glue_1.4.2           withr_2.4.2          DBI_1.1.1           
[13] BiocParallel_1.27.10 dbplyr_2.1.1         modelr_0.1.8         readxl_1.3.1        
[17] lifecycle_1.0.1      munsell_0.5.0        gtable_0.3.0         cellranger_1.1.0    
[21] rvest_1.0.1          tzdb_0.1.2           parallel_4.1.1       fansi_0.5.0         
[25] broom_0.7.9          Rcpp_1.0.7           scales_1.1.1         backports_1.2.1     
[29] jsonlite_1.7.2       fs_1.5.0             gridExtra_2.3        fastmatch_1.1-3     
[33] hms_1.1.1            stringi_1.7.4        grid_4.1.1           cli_3.0.1           
[37] tools_4.1.1          magrittr_2.0.1       crayon_1.4.1         pkgconfig_2.0.3     
[41] ellipsis_0.3.2       Matrix_1.3-4         xml2_1.3.2           reprex_2.0.1        
[45] lubridate_1.7.10     assertthat_0.2.1     httr_1.4.2           rstudioapi_0.13     
[49] R6_2.5.1             compiler_4.1.1 
ggplot • 2.2k views
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