Create mass_dataset class from other tools

data("mzmine_table")
object =
   convet_mzmine2mass_dataset(x = mzmine_table)
object
#> -------------------- 
#> massdataset version: 1.0.34 
#> -------------------- 
#> 1.expression_data:[ 3443 x 22 data.frame]
#> 2.sample_info:[ 22 x 2 data.frame]
#> 22 samples:10232_P4_RE4_01_476.mzXML Peak area 10765_P4_RE9_01_482.mzXML Peak area 10546_P4_RG11_01_515.mzXML Peak area ... 31878_P1_RH3_01_131.mzXML Peak area 14563_P1_RE10_01_99.mzXML Peak area
#> 3.variable_info:[ 3443 x 3 data.frame]
#> 3443 variables:1 2 3 ... 12248 12382
#> 4.sample_info_note:[ 2 x 2 data.frame]
#> 5.variable_info_note:[ 3 x 2 data.frame]
#> 6.ms2_data:[ 0 variables x 0 MS2 spectra]
#> -------------------- 
#> Processing information
#> 1 processings in total
#> create_mass_dataset ---------- 
#>       Package                Function.used                Time
#> 1 massdataset convet_mzmine2mass_dataset() 2024-09-25 21:02:13

data("msdial_table")
object =
   convert_msdial2mass_dataset(x = msdial_table)
object
#> -------------------- 
#> massdataset version: 1.0.34 
#> -------------------- 
#> 1.expression_data:[ 3751 x 20 data.frame]
#> 2.sample_info:[ 20 x 5 data.frame]
#> 20 samples:W03.01 W03.02 W03.03 ... W30.09 W30.10
#> 3.variable_info:[ 3751 x 32 data.frame]
#> 3751 variables:0 1 2 ... 6716 6717
#> 4.sample_info_note:[ 5 x 2 data.frame]
#> 5.variable_info_note:[ 32 x 2 data.frame]
#> 6.ms2_data:[ 0 variables x 0 MS2 spectra]
#> -------------------- 
#> Processing information
#> 1 processings in total
#> create_mass_dataset ---------- 
#>       Package                 Function.used                Time
#> 1 massdataset convert_msdial2mass_dataset() 2024-09-25 21:02:14

sessionInfo()
#> R version 4.4.1 (2024-06-14)
#> Platform: aarch64-apple-darwin20
#> Running under: macOS 15.0
#> 
#> Matrix products: default
#> BLAS:   /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRblas.0.dylib 
#> LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.0
#> 
#> locale:
#> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
#> 
#> time zone: Asia/Singapore
#> tzcode source: internal
#> 
#> attached base packages:
#> [1] stats     graphics  grDevices utils     datasets  methods   base     
#> 
#> other attached packages:
#> [1] kableExtra_1.4.0   ggplot2_3.5.1      dplyr_1.1.4        magrittr_2.0.3    
#> [5] masstools_1.0.13   massdataset_1.0.34
#> 
#> loaded via a namespace (and not attached):
#>   [1] bitops_1.0-8                pbapply_1.7-2              
#>   [3] remotes_2.5.0               rlang_1.1.4                
#>   [5] clue_0.3-65                 GetoptLong_1.0.5           
#>   [7] matrixStats_1.3.0           compiler_4.4.1             
#>   [9] systemfonts_1.1.0           png_0.1-8                  
#>  [11] vctrs_0.6.5                 reshape2_1.4.4             
#>  [13] stringr_1.5.1               ProtGenerics_1.36.0        
#>  [15] pkgconfig_2.0.3             shape_1.4.6.1              
#>  [17] crayon_1.5.3                fastmap_1.2.0              
#>  [19] XVector_0.44.0              utf8_1.2.4                 
#>  [21] rmarkdown_2.28              tzdb_0.4.0                 
#>  [23] preprocessCore_1.66.0       UCSC.utils_1.0.0           
#>  [25] purrr_1.0.2                 xfun_0.47                  
#>  [27] MultiAssayExperiment_1.30.3 zlibbioc_1.50.0            
#>  [29] cachem_1.1.0                GenomeInfoDb_1.40.1        
#>  [31] jsonlite_1.8.8              highr_0.11                 
#>  [33] DelayedArray_0.30.1         BiocParallel_1.38.0        
#>  [35] parallel_4.4.1              cluster_2.1.6              
#>  [37] R6_2.5.1                    bslib_0.8.0                
#>  [39] stringi_1.8.4               RColorBrewer_1.1-3         
#>  [41] limma_3.60.4                GenomicRanges_1.56.1       
#>  [43] jquerylib_0.1.4             Rcpp_1.0.13                
#>  [45] bookdown_0.40               SummarizedExperiment_1.34.0
#>  [47] iterators_1.0.14            knitr_1.48                 
#>  [49] readr_2.1.5                 IRanges_2.38.1             
#>  [51] Matrix_1.7-0                igraph_2.0.3               
#>  [53] tidyselect_1.2.1            rstudioapi_0.16.0          
#>  [55] abind_1.4-5                 yaml_2.3.10                
#>  [57] affy_1.82.0                 doParallel_1.0.17          
#>  [59] codetools_0.2-20            blogdown_1.19              
#>  [61] lattice_0.22-6              tibble_3.2.1               
#>  [63] plyr_1.8.9                  withr_3.0.1                
#>  [65] Biobase_2.64.0              evaluate_0.24.0            
#>  [67] xml2_1.3.6                  zip_2.3.1                  
#>  [69] circlize_0.4.16             BiocManager_1.30.25        
#>  [71] affyio_1.74.0               pillar_1.9.0               
#>  [73] MatrixGenerics_1.16.0       foreach_1.5.2              
#>  [75] stats4_4.4.1                MSnbase_2.30.1             
#>  [77] MALDIquant_1.22.3           ncdf4_1.23                 
#>  [79] generics_0.1.3              RCurl_1.98-1.16            
#>  [81] rprojroot_2.0.4             hms_1.1.3                  
#>  [83] S4Vectors_0.42.1            munsell_0.5.1              
#>  [85] scales_1.3.0                glue_1.7.0                 
#>  [87] lazyeval_0.2.2              tools_4.4.1                
#>  [89] mzID_1.42.0                 QFeatures_1.14.2           
#>  [91] vsn_3.72.0                  mzR_2.38.0                 
#>  [93] openxlsx_4.2.7              XML_3.99-0.17              
#>  [95] grid_4.4.1                  impute_1.78.0              
#>  [97] tidyr_1.3.1                 MsCoreUtils_1.16.1         
#>  [99] colorspace_2.1-1            GenomeInfoDbData_1.2.12    
#> [101] PSMatch_1.8.0               cli_3.6.3                  
#> [103] fansi_1.0.6                 viridisLite_0.4.2          
#> [105] S4Arrays_1.4.1              svglite_2.1.3              
#> [107] ComplexHeatmap_2.20.0       AnnotationFilter_1.28.0    
#> [109] pcaMethods_1.96.0           gtable_0.3.5               
#> [111] sass_0.4.9                  digest_0.6.37              
#> [113] BiocGenerics_0.50.0         SparseArray_1.4.8          
#> [115] rjson_0.2.22                htmltools_0.5.8.1          
#> [117] lifecycle_1.0.4             httr_1.4.7                 
#> [119] here_1.0.1                  statmod_1.5.0              
#> [121] GlobalOptions_0.1.2         MASS_7.3-61