Environment

Our computational environment is below.

sessionInfo()
## R version 4.1.1 (2021-08-10)
## 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.1252
## [2] LC_CTYPE=English_United States.1252
## [3] LC_MONETARY=English_United States.1252
## [4] LC_NUMERIC=C
## [5] LC_TIME=English_United States.1252
##
## attached base packages:
## [1] stats4    stats     graphics  grDevices utils     datasets  methods
## [8] base
##
## other attached packages:
##  [1] scran_1.20.1                scater_1.20.1
##  [3] scuttle_1.2.1               SingleCellExperiment_1.14.1
##  [5] SummarizedExperiment_1.22.0 Biobase_2.52.0
##  [7] GenomicRanges_1.44.0        GenomeInfoDb_1.28.4
##  [9] IRanges_2.26.0              S4Vectors_0.30.2
## [11] BiocGenerics_0.40.0         MatrixGenerics_1.4.3
## [13] matrixStats_0.61.0          LaplacesDemon_16.1.6
## [15] mvtnorm_1.1-3               DirichletReg_0.7-1
## [17] Formula_1.2-4               RcppDist_0.1.1
## [19] RcppArmadillo_0.11.4.3.1    Rcpp_1.0.10
## [21] ggplot2_3.4.0
##
## loaded via a namespace (and not attached):
##  [1] bitops_1.0-7              tools_4.1.1
##  [3] bslib_0.4.0               utf8_1.2.3
##  [5] R6_2.5.1                  irlba_2.3.5
##  [7] vipor_0.4.5               DBI_1.1.3
##  [9] colorspace_2.1-0          withr_2.5.0
## [11] tidyselect_1.1.2          gridExtra_2.3
## [13] compiler_4.1.1            cli_3.4.0
## [15] BiocNeighbors_1.10.0      DelayedArray_0.18.0
## [17] sandwich_3.0-2            labeling_0.4.2
## [19] sass_0.4.2                scales_1.2.1
## [21] stringr_1.4.1             digest_0.6.29
## [23] rmarkdown_2.16            XVector_0.32.0
## [25] pkgconfig_2.0.3           htmltools_0.5.3
## [27] sparseMatrixStats_1.4.2   highr_0.9
## [29] limma_3.48.3              fastmap_1.1.0
## [31] rlang_1.0.6               rstudioapi_0.14
## [33] DelayedMatrixStats_1.14.3 farver_2.1.1
## [35] jquerylib_0.1.4           generics_0.1.3
## [37] zoo_1.8-9                 jsonlite_1.8.0
## [39] BiocParallel_1.26.2       dplyr_1.0.10
## [41] RCurl_1.98-1.5            magrittr_2.0.2
## [43] BiocSingular_1.8.1        GenomeInfoDbData_1.2.6
## [45] Matrix_1.5-1              ggbeeswarm_0.6.0
## [47] munsell_0.5.0             fansi_1.0.4
## [49] viridis_0.6.2             lifecycle_1.0.3
## [51] edgeR_3.34.1              stringi_1.7.8
## [53] yaml_2.3.5                zlibbioc_1.38.0
## [55] grid_4.1.1                dqrng_0.3.0
## [57] parallel_4.1.1            lattice_0.20-44
## [59] beachmat_2.8.1            locfit_1.5-9.4
## [61] metapod_1.0.0             knitr_1.40
## [63] pillar_1.8.1              igraph_1.2.11
## [65] ScaledMatrix_1.0.0        glue_1.6.1
## [67] evaluate_0.16             vctrs_0.5.2
## [69] miscTools_0.6-26          gtable_0.3.1
## [71] purrr_0.3.4               assertthat_0.2.1
## [73] cachem_1.0.6              xfun_0.33
## [75] rsvd_1.0.5                viridisLite_0.4.1
## [77] tibble_3.1.8              beeswarm_0.4.0
## [79] cluster_2.1.2             maxLik_1.5-2
## [81] statmod_1.4.36            bluster_1.2.1