Introduction to LongOmicsTraj

Introduction

Welcome to LongOmicsTraj. This package is designed to cluster and monitor long time-series MultiAssayExperiment omics structures.

Quick Start Example

# Code implementation demo goes here

Session information

sessionInfo()
#> R version 4.6.1 (2026-06-24)
#> Platform: x86_64-pc-linux-gnu
#> Running under: Ubuntu 26.04.1 LTS
#> 
#> Matrix products: default
#> BLAS:   /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 
#> LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.32.so;  LAPACK version 3.12.0
#> 
#> locale:
#>  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
#>  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
#>  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
#>  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
#>  [9] LC_ADDRESS=C               LC_TELEPHONE=C            
#> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       
#> 
#> time zone: Etc/UTC
#> tzcode source: system (glibc)
#> 
#> attached base packages:
#> [1] stats4    stats     graphics  grDevices utils     datasets  methods  
#> [8] base     
#> 
#> other attached packages:
#>  [1] BiocStyle_2.41.0            scales_1.4.0               
#>  [3] ggplot2_4.0.3               tibble_3.3.1               
#>  [5] tidyr_1.3.2                 dplyr_1.2.1                
#>  [7] LongOmicsTraj_0.99.0        MultiAssayExperiment_1.39.1
#>  [9] SummarizedExperiment_1.43.0 Biobase_2.73.2             
#> [11] GenomicRanges_1.65.4        Seqinfo_1.3.2              
#> [13] IRanges_2.47.5              S4Vectors_0.51.10          
#> [15] BiocGenerics_0.59.12        generics_0.1.4             
#> [17] MatrixGenerics_1.25.0       matrixStats_1.5.0          
#> [19] rmarkdown_2.32             
#> 
#> loaded via a namespace (and not attached):
#>  [1] utf8_1.2.6          sass_0.4.10         SparseArray_1.13.4 
#>  [4] lattice_0.23-1      digest_0.6.39       magrittr_2.0.5     
#>  [7] RColorBrewer_1.1-3  evaluate_1.0.5      grid_4.6.1         
#> [10] fastmap_1.2.0       jsonlite_2.0.0      Matrix_1.7-6       
#> [13] nnet_7.3-21         BiocManager_1.30.27 purrr_1.2.2        
#> [16] modeltools_0.2-25   jquerylib_0.1.4     abind_1.4-8        
#> [19] cli_3.6.6           rlang_1.3.0         XVector_0.53.0     
#> [22] withr_3.0.3         cachem_1.1.0        DelayedArray_0.39.8
#> [25] yaml_2.3.12         otel_0.2.0          S4Arrays_1.13.2    
#> [28] flexmix_2.3-21      tools_4.6.1         buildtools_1.0.0   
#> [31] vctrs_0.7.3         R6_2.6.1            lifecycle_1.0.5    
#> [34] cluster_2.1.8.3     pkgconfig_2.0.3     gtable_0.3.6       
#> [37] bslib_0.12.0        pillar_1.11.1       data.table_1.18.6.1
#> [40] glue_1.8.1          xfun_0.61           tidyselect_1.2.1   
#> [43] sys_3.4.3           knitr_1.52          farver_2.1.2       
#> [46] patchwork_1.3.2     htmltools_0.5.9     labeling_0.4.3     
#> [49] maketools_1.3.2     compiler_4.6.1      S7_0.2.2