adw96 / stamps Goto Github PK

> Error in shannon(frequency_count_list[[1]]) : 
>   could not find function "shannon"

> Estimate of shannon from method chao_shen:
>   Estimate is 4.19
>  with standard error 0.15

sessionInfo()

> R version 3.6.1 (2019-07-05)
> Platform: x86_64-pc-linux-gnu (64-bit)
> Running under: Ubuntu 18.04.2 LTS
> 
> Matrix products: default
> BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
> LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1
> 
> locale:
>  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C               LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8     LC_MONETARY=en_US.UTF-8   
>  [6] LC_MESSAGES=en_US.UTF-8    LC_PAPER=en_US.UTF-8       LC_NAME=C                  LC_ADDRESS=C               LC_TELEPHONE=C            
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base     
> 
> other attached packages:
> [1] breakaway_4.6.11
> 
> loaded via a namespace (and not attached):
>  [1] tidyselect_0.2.5    reshape2_1.4.3      purrr_0.3.2         splines_3.6.1       lattice_0.20-38     rhdf5_2.28.0        colorspace_1.4-1   
>  [8] stats4_3.6.1        mgcv_1.8-28         survival_2.44-1.1   rlang_0.3.4         pillar_1.4.1        glue_1.3.1          BiocGenerics_0.30.0
> [15] foreach_1.4.4       plyr_1.8.4          stringr_1.4.0       zlibbioc_1.30.0     Biostrings_2.52.0   munsell_0.5.0       gtable_0.3.0       
> [22] codetools_0.2-16    phyloseq_1.28.0     labeling_0.3        Biobase_2.44.0      permute_0.9-5       IRanges_2.18.1      biomformat_1.12.0  
> [29] parallel_3.6.1      Rcpp_1.0.1          scales_1.0.0        vegan_2.5-5         S4Vectors_0.22.0    jsonlite_1.6        XVector_0.24.0     
> [36] digest_0.6.19       ggplot2_3.1.1       packrat_0.5.0-8     stringi_1.4.3       dplyr_0.8.1         grid_3.6.1          ade4_1.7-13        
> [43] tools_3.6.1         magrittr_1.5        lazyeval_0.2.2      tibble_2.1.3        cluster_2.0.9       crayon_1.3.4        ape_5.3            
> [50] pkgconfig_2.0.2     MASS_7.3-51.4       Matrix_1.2-17       data.table_1.12.2   assertthat_0.2.1    rstudioapi_0.10     iterators_1.0.10   
> [57] Rhdf5lib_1.6.0      R6_2.4.0            multtest_2.40.0     igraph_1.2.4.1      nlme_3.1-140        compiler_3.6.1