## ─ Session info ────────────────────────────────────────────────────────────
## setting value
## version R version 4.5.0 (2025-04-11)
## os Ubuntu 24.04.2 LTS
## system x86_64, linux-gnu
## ui X11
## language (EN)
## collate C
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2025-04-30
## pandoc 3.6.4 @ /usr/bin/ (via rmarkdown)
## quarto 1.5.57 @ /usr/local/bin/quarto
##
## ─ Packages ────────────────────────────────────────────────────────────────
## package * version date (UTC) lib source
## abind 1.4-8 2024-09-12 [2] RSPM (R 4.5.0)
## ALL 1.51.0 2025-04-17 [2] Bioconductor 3.22 (R 4.5.0)
## annotate 1.87.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## AnnotationDbi 1.71.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## AnnotationHub 3.99.0 2025-04-22 [2] Bioconductor 3.22 (R 4.5.0)
## ape 5.8-1 2024-12-16 [2] RSPM (R 4.5.0)
## aplot 0.2.5 2025-02-27 [2] RSPM (R 4.5.0)
## aricode 1.0.3 2023-10-20 [2] RSPM (R 4.5.0)
## arrow 19.0.1.1 2025-04-08 [2] RSPM (R 4.5.0)
## ash 1.0-15 2015-09-01 [2] RSPM (R 4.5.0)
## askpass 1.2.1 2024-10-04 [2] RSPM (R 4.5.0)
## assertthat 0.2.1 2019-03-21 [2] RSPM (R 4.5.0)
## assorthead 1.3.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## attempt 0.3.1 2020-05-03 [2] RSPM (R 4.5.0)
## AUCell 1.31.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## babelgene 22.9 2022-09-29 [2] RSPM (R 4.5.0)
## backports 1.5.0 2024-05-23 [2] RSPM (R 4.5.0)
## Banksy 1.5.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## base * 4.5.0 2025-04-11 [3] local
## base64enc 0.1-3 2015-07-28 [2] RSPM (R 4.5.0)
## basilisk 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## basilisk.utils 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BayesSpace 1.15.3 2025-04-30 [2] Github (edward130603/BayesSpace@7dc505e)
## beachmat 2.25.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## beeswarm 0.4.0 2021-06-01 [2] RSPM (R 4.5.0)
## benchmarkme 1.0.8 2022-06-12 [2] RSPM (R 4.5.0)
## benchmarkmeData 1.0.4 2020-04-23 [2] RSPM (R 4.5.0)
## BH 1.87.0-1 2024-12-17 [2] RSPM (R 4.5.0)
## Biobase 2.69.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocBaseUtils 1.11.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocFileCache 2.99.0 2025-04-22 [2] Bioconductor 3.22 (R 4.5.0)
## BiocGenerics 0.55.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocIO 1.19.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## biocmake 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocManager 1.30.25 2024-08-28 [2] CRAN (R 4.5.0)
## BiocNeighbors 2.3.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocParallel 1.43.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocSingular 1.25.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocStyle 2.37.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## BiocVersion 3.22.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## Biostrings 2.77.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## bit 4.6.0 2025-03-06 [2] RSPM (R 4.5.0)
## bit64 4.6.0-1 2025-01-16 [2] RSPM (R 4.5.0)
## bitops 1.0-9 2024-10-03 [2] RSPM (R 4.5.0)
## blob 1.2.4 2023-03-17 [2] RSPM (R 4.5.0)
## bluster 1.19.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## bookdown 0.43 2025-04-15 [2] RSPM (R 4.5.0)
## boot 1.3-31 2024-08-28 [3] CRAN (R 4.5.0)
## brew 1.0-10 2023-12-16 [2] RSPM (R 4.5.0)
## brio 1.1.5 2024-04-24 [2] RSPM (R 4.5.0)
## BRISC 1.0.6 2024-10-02 [2] RSPM (R 4.5.0)
## broom 1.0.8 2025-03-28 [2] RSPM (R 4.5.0)
## bslib 0.9.0 2025-01-30 [2] RSPM (R 4.5.0)
## cachem 1.1.0 2024-05-16 [2] RSPM (R 4.5.0)
## Cairo 1.6-2 2023-11-28 [2] RSPM (R 4.5.0)
## callr 3.7.6 2024-03-25 [2] RSPM (R 4.5.0)
## car 3.1-3 2024-09-27 [2] RSPM (R 4.5.0)
## carData 3.0-5 2022-01-06 [2] RSPM (R 4.5.0)
## CARDspa 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## caTools 1.18.3 2024-09-04 [2] RSPM (R 4.5.0)
## circlize 0.4.16 2024-02-20 [2] RSPM (R 4.5.0)
## class 7.3-23 2025-01-01 [3] CRAN (R 4.5.0)
## classInt 0.4-11 2025-01-08 [2] RSPM (R 4.5.0)
## cli 3.6.5 2025-04-23 [2] RSPM (R 4.5.0)
## clipr 0.8.0 2022-02-22 [2] RSPM (R 4.5.0)
## clue 0.3-66 2024-11-13 [2] RSPM (R 4.5.0)
## cluster 2.1.8.1 2025-03-12 [3] CRAN (R 4.5.0)
## coda 0.19-4.1 2024-01-31 [2] RSPM (R 4.5.0)
## codetools 0.2-20 2024-03-31 [3] CRAN (R 4.5.0)
## colorRamps 2.3.4 2024-03-07 [2] RSPM (R 4.5.0)
## colorspace 2.1-1 2024-07-26 [2] RSPM (R 4.5.0)
## cols4all 0.8 2024-10-16 [2] RSPM (R 4.5.0)
## commonmark 1.9.5 2025-03-17 [2] RSPM (R 4.5.0)
## compiler 4.5.0 2025-04-11 [3] local
## ComplexHeatmap 2.25.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## concaveman 1.1.0 2020-05-11 [2] RSPM (R 4.5.0)
## config 0.3.2 2023-08-30 [2] RSPM (R 4.5.0)
## ConsensusClusterPlus 1.73.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## corrplot 0.95 2024-10-14 [2] RSPM (R 4.5.0)
## cowplot 1.1.3 2024-01-22 [2] RSPM (R 4.5.0)
## cpp11 0.5.2 2025-03-03 [2] RSPM (R 4.5.0)
## crayon 1.5.3 2024-06-20 [2] RSPM (R 4.5.0)
## credentials 2.0.2 2024-10-04 [2] RSPM (R 4.5.0)
## crosstalk 1.2.1 2023-11-23 [2] RSPM (R 4.5.0)
## crul 1.5.0 2024-07-19 [2] RSPM (R 4.5.0)
## curl 6.2.2 2025-03-24 [2] RSPM (R 4.5.0)
## cytolib 2.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## cytomapper 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## data.table 1.17.0 2025-02-22 [2] RSPM (R 4.5.0)
## datasets * 4.5.0 2025-04-11 [3] local
## DBI 1.2.3 2024-06-02 [2] RSPM (R 4.5.0)
## dbplyr 2.5.0 2024-03-19 [2] RSPM (R 4.5.0)
## dbscan 1.2.2 2025-01-26 [2] RSPM (R 4.5.0)
## DelayedArray 0.35.1 2025-04-20 [2] Bioconductor 3.22 (R 4.5.0)
## DelayedMatrixStats 1.31.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## deldir 2.0-4 2024-02-28 [2] RSPM (R 4.5.0)
## DEoptimR 1.1-3-1 2024-11-23 [2] RSPM (R 4.5.0)
## Deriv 4.1.6 2024-09-13 [2] RSPM (R 4.5.0)
## desc 1.4.3 2023-12-10 [2] RSPM (R 4.5.0)
## deSolve 1.40 2023-11-27 [2] RSPM (R 4.5.0)
## DESpace 2.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## devtools 2.4.5 2022-10-11 [2] RSPM (R 4.5.0)
## dichromat 2.0-0.1 2022-05-02 [2] RSPM (R 4.5.0)
## diffcyt 1.29.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## diffobj 0.3.6 2025-04-21 [2] RSPM (R 4.5.0)
## digest 0.6.37 2024-08-19 [2] RSPM (R 4.5.0)
## dir.expiry 1.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## DirichletReg 0.7-1 2021-05-18 [2] RSPM (R 4.5.0)
## distances 0.1.12 2025-04-01 [2] RSPM (R 4.5.0)
## doBy 4.6.26 2025-04-09 [2] RSPM (R 4.5.0)
## docopt 0.7.2 2025-03-25 [2] RSPM (R 4.5.0)
## doMC 1.3.8 2022-02-05 [2] RSPM (R 4.5.0)
## doParallel 1.0.17 2022-02-07 [2] RSPM (R 4.5.0)
## dotCall64 1.2 2024-10-04 [2] RSPM (R 4.5.0)
## downlit 0.4.4 2024-06-10 [2] RSPM (R 4.5.0)
## dplyr 1.1.4 2023-11-17 [2] RSPM (R 4.5.0)
## dqrng 0.4.1 2024-05-28 [2] RSPM (R 4.5.0)
## DropletUtils 1.29.0 2025-04-20 [2] Bioconductor 3.22 (R 4.5.0)
## DT 0.33 2024-04-04 [2] RSPM (R 4.5.0)
## e1071 1.7-16 2024-09-16 [2] RSPM (R 4.5.0)
## EBImage 4.51.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## edgeR 4.7.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## ellipsis 0.3.2 2021-04-29 [2] RSPM (R 4.5.0)
## escheR 1.9.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## evaluate 1.0.3 2025-01-10 [2] RSPM (R 4.5.0)
## ExperimentHub 2.99.0 2025-04-22 [2] Bioconductor 3.22 (R 4.5.0)
## fansi 1.0.6 2023-12-08 [2] RSPM (R 4.5.0)
## farver 2.1.2 2024-05-13 [2] RSPM (R 4.5.0)
## fastDummies 1.7.5 2025-01-20 [2] RSPM (R 4.5.0)
## fastmap 1.2.0 2024-05-15 [2] RSPM (R 4.5.0)
## fda 6.2.0 2024-09-17 [2] RSPM (R 4.5.0)
## fds 1.8 2018-10-31 [2] RSPM (R 4.5.0)
## fftwtools 0.9-11 2021-03-01 [2] RSPM (R 4.5.0)
## fields 16.3.1 2025-03-08 [2] RSPM (R 4.5.0)
## filelock 1.0.3 2023-12-11 [2] RSPM (R 4.5.0)
## fitdistrplus 1.2-2 2025-01-07 [2] RSPM (R 4.5.0)
## flowCore 2.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## FlowSOM 2.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## FNN 1.1.4.1 2024-09-22 [2] RSPM (R 4.5.0)
## fontawesome 0.5.3 2024-11-16 [2] RSPM (R 4.5.0)
## foreach 1.5.2 2022-02-02 [2] RSPM (R 4.5.0)
## foreign 0.8-90 2025-03-31 [3] CRAN (R 4.5.0)
## formatR 1.14 2023-01-17 [2] RSPM (R 4.5.0)
## Formula 1.2-5 2023-02-24 [2] RSPM (R 4.5.0)
## fs 1.6.6 2025-04-12 [2] RSPM (R 4.5.0)
## futile.logger 1.4.3 2016-07-10 [2] RSPM (R 4.5.0)
## futile.options 1.0.1 2018-04-20 [2] RSPM (R 4.5.0)
## future 1.40.0 2025-04-10 [2] RSPM (R 4.5.0)
## future.apply 1.11.3 2024-10-27 [2] RSPM (R 4.5.0)
## gamm4 0.2-7 2025-04-22 [2] RSPM (R 4.5.0)
## generics 0.1.3 2022-07-05 [2] RSPM (R 4.5.0)
## GenomeInfoDb 1.45.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## GenomeInfoDbData 1.2.14 2025-04-30 [2] Bioconductor
## GenomicAlignments 1.45.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## GenomicRanges 1.61.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## geojsonsf 2.0.3 2022-05-30 [2] RSPM (R 4.5.0)
## geometries 0.2.4 2024-01-15 [2] RSPM (R 4.5.0)
## gert 2.1.5 2025-03-25 [2] RSPM (R 4.5.0)
## GetoptLong 1.0.5 2020-12-15 [2] RSPM (R 4.5.0)
## ggbeeswarm 0.7.2 2023-04-29 [2] RSPM (R 4.5.0)
## ggcorrplot 0.1.4.1 2023-09-05 [2] RSPM (R 4.5.0)
## ggforce 0.4.2 2024-02-19 [2] RSPM (R 4.5.0)
## ggfun 0.1.8 2024-12-03 [2] RSPM (R 4.5.0)
## ggiraph 0.8.13 2025-03-28 [2] RSPM (R 4.5.0)
## ggnewscale 0.5.1 2025-02-24 [2] RSPM (R 4.5.0)
## ggplot2 3.5.2 2025-04-09 [2] RSPM (R 4.5.0)
## ggplotify 0.1.2 2023-08-09 [2] RSPM (R 4.5.0)
## ggpubr 0.6.0 2023-02-10 [2] RSPM (R 4.5.0)
## ggraph 2.2.1 2024-03-07 [2] RSPM (R 4.5.0)
## ggrastr 1.0.2 2023-06-01 [2] RSPM (R 4.5.0)
## ggrepel 0.9.6 2024-09-07 [2] RSPM (R 4.5.0)
## ggridges 0.5.6 2024-01-23 [2] RSPM (R 4.5.0)
## ggsci 3.2.0 2024-06-18 [2] RSPM (R 4.5.0)
## ggside 0.3.1 2024-03-01 [2] RSPM (R 4.5.0)
## ggsignif 0.6.4 2022-10-13 [2] RSPM (R 4.5.0)
## ggspavis 1.15.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## ggtree 3.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## gh 1.4.1 2024-03-28 [2] RSPM (R 4.5.0)
## gitcreds 0.1.2 2022-09-08 [2] RSPM (R 4.5.0)
## GlobalOptions 0.1.2 2020-06-10 [2] RSPM (R 4.5.0)
## globals 0.17.0 2025-04-16 [2] RSPM (R 4.5.0)
## glue 1.8.0 2024-09-30 [2] RSPM (R 4.5.0)
## goftest 1.2-3 2021-10-07 [2] RSPM (R 4.5.0)
## golem 0.5.1 2024-08-27 [2] RSPM (R 4.5.0)
## gplots 3.2.0 2024-10-05 [2] RSPM (R 4.5.0)
## graph 1.87.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## graphics * 4.5.0 2025-04-11 [3] local
## graphlayouts 1.2.2 2025-01-23 [2] RSPM (R 4.5.0)
## grDevices * 4.5.0 2025-04-11 [3] local
## grid 4.5.0 2025-04-11 [3] local
## gridBase 0.4-7 2014-02-24 [2] RSPM (R 4.5.0)
## gridExtra 2.3 2017-09-09 [2] RSPM (R 4.5.0)
## gridGraphics 0.5-1 2020-12-13 [2] RSPM (R 4.5.0)
## grpreg 3.5.0 2024-09-03 [2] RSPM (R 4.5.0)
## GSEABase 1.71.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## gtable 0.3.6 2024-10-25 [2] RSPM (R 4.5.0)
## gtools 3.9.5 2023-11-20 [2] RSPM (R 4.5.0)
## h5mread 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## harmony 1.2.3 2024-11-27 [2] RSPM (R 4.5.0)
## HDF5Array 1.37.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## hdrcde 3.4 2021-01-18 [2] RSPM (R 4.5.0)
## here 1.0.1 2020-12-13 [2] RSPM (R 4.5.0)
## highr 0.11 2024-05-26 [2] RSPM (R 4.5.0)
## hms 1.1.3 2023-03-21 [2] RSPM (R 4.5.0)
## hoodscanR 1.7.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## hopach 2.69.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## htmltools 0.5.8.1 2024-04-04 [2] RSPM (R 4.5.0)
## htmlwidgets 1.6.4 2023-12-06 [2] RSPM (R 4.5.0)
## httpcode 0.3.0 2020-04-10 [2] RSPM (R 4.5.0)
## httpuv 1.6.16 2025-04-16 [2] RSPM (R 4.5.0)
## httr 1.4.7 2023-08-15 [2] RSPM (R 4.5.0)
## httr2 1.1.2 2025-03-26 [2] RSPM (R 4.5.0)
## ica 1.0-3 2022-07-08 [2] RSPM (R 4.5.0)
## igraph 2.1.4 2025-01-23 [2] RSPM (R 4.5.0)
## imcRtools 1.15.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## ini 0.3.1 2018-05-20 [2] RSPM (R 4.5.0)
## IRanges 2.43.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## irlba 2.3.5.1 2022-10-03 [2] RSPM (R 4.5.0)
## isoband 0.2.7 2022-12-20 [2] RSPM (R 4.5.0)
## iterators 1.0.14 2022-02-05 [2] RSPM (R 4.5.0)
## jpeg 0.1-11 2025-03-21 [2] RSPM (R 4.5.0)
## jquerylib 0.1.4 2021-04-26 [2] RSPM (R 4.5.0)
## jsonify 1.2.2 2022-11-09 [2] RSPM (R 4.5.0)
## jsonlite 2.0.0 2025-03-27 [2] RSPM (R 4.5.0)
## KEGGREST 1.49.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## kernlab 0.9-33 2024-08-13 [2] RSPM (R 4.5.0)
## KernSmooth 2.23-26 2025-01-01 [3] CRAN (R 4.5.0)
## knitr 1.50 2025-03-16 [2] RSPM (R 4.5.0)
## ks 1.14.3 2024-09-20 [2] RSPM (R 4.5.0)
## labeling 0.4.3 2023-08-29 [2] RSPM (R 4.5.0)
## lambda.r 1.2.4 2019-09-18 [2] RSPM (R 4.5.0)
## later 1.4.2 2025-04-08 [2] RSPM (R 4.5.0)
## lattice 0.22-7 2025-04-02 [2] RSPM (R 4.5.0)
## lazyeval 0.2.2 2019-03-15 [2] RSPM (R 4.5.0)
## leafem 0.2.3 2023-09-17 [2] RSPM (R 4.5.0)
## leafgl 0.2.2 2024-11-13 [2] RSPM (R 4.5.0)
## leaflegend 1.2.1 2024-05-09 [2] RSPM (R 4.5.0)
## leaflet 2.2.2 2024-03-26 [2] RSPM (R 4.5.0)
## leaflet.providers 2.0.0 2023-10-17 [2] RSPM (R 4.5.0)
## leafsync 0.1.0 2019-03-05 [2] RSPM (R 4.5.0)
## LearnBayes 2.15.1 2018-03-18 [2] RSPM (R 4.5.0)
## leidenAlg 1.1.5 2025-04-19 [2] RSPM (R 4.5.0)
## leidenbase 0.1.35 2025-04-02 [2] RSPM (R 4.5.0)
## lifecycle 1.0.4 2023-11-07 [2] RSPM (R 4.5.0)
## limma 3.65.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## listenv 0.9.1 2024-01-29 [2] RSPM (R 4.5.0)
## littler 0.3.21 2025-03-25 [2] RSPM (R 4.5.0)
## lme4 1.1-37 2025-03-26 [2] RSPM (R 4.5.0)
## lmtest 0.9-40 2022-03-21 [2] RSPM (R 4.5.0)
## lobstr 1.1.2 2022-06-22 [2] RSPM (R 4.5.0)
## locfit 1.5-9.12 2025-03-05 [2] RSPM (R 4.5.0)
## logger 0.4.0 2024-10-22 [2] RSPM (R 4.5.0)
## lwgeom 0.2-14 2024-02-21 [2] RSPM (R 4.5.0)
## magic 1.6-1 2022-11-16 [2] RSPM (R 4.5.0)
## magick 2.8.6 2025-03-23 [2] RSPM (R 4.5.0)
## magrittr 2.0.3 2022-03-30 [2] RSPM (R 4.5.0)
## mapproj 1.2.11 2023-01-12 [2] RSPM (R 4.5.0)
## maps 3.4.2.1 2024-11-10 [2] RSPM (R 4.5.0)
## MASS 7.3-65 2025-02-28 [3] CRAN (R 4.5.0)
## Matrix 1.7-3 2025-03-11 [3] CRAN (R 4.5.0)
## MatrixGenerics 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## MatrixModels 0.5-4 2025-03-26 [2] RSPM (R 4.5.0)
## matrixStats 1.5.0 2025-01-07 [2] RSPM (R 4.5.0)
## maxLik 1.5-2.1 2024-03-24 [2] RSPM (R 4.5.0)
## mclust 6.1.1 2024-04-29 [2] RSPM (R 4.5.0)
## mcmc 0.9-8 2023-11-16 [2] RSPM (R 4.5.0)
## MCMCpack 1.7-1 2024-08-27 [2] RSPM (R 4.5.0)
## memoise 2.0.1 2021-11-26 [2] RSPM (R 4.5.0)
## memuse 4.2-3 2023-01-24 [2] RSPM (R 4.5.0)
## metapod 1.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## methods * 4.5.0 2025-04-11 [3] local
## mgcv 1.9-3 2025-04-04 [2] RSPM (R 4.5.0)
## microbenchmark 1.5.0 2024-09-04 [2] RSPM (R 4.5.0)
## mime 0.13 2025-03-17 [2] RSPM (R 4.5.0)
## miniUI 0.1.2 2025-04-17 [2] RSPM (R 4.5.0)
## minqa 1.2.8 2024-08-17 [2] RSPM (R 4.5.0)
## miscTools 0.6-28 2023-05-03 [2] RSPM (R 4.5.0)
## mixtools 2.0.0.1 2025-03-08 [2] RSPM (R 4.5.0)
## modelr 0.1.11 2023-03-22 [2] RSPM (R 4.5.0)
## msigdbr 10.0.2 2025-04-14 [2] RSPM (R 4.5.0)
## multcomp 1.4-28 2025-01-29 [2] RSPM (R 4.5.0)
## multicool 1.0.1 2024-02-05 [2] RSPM (R 4.5.0)
## mvtnorm 1.3-3 2025-01-10 [2] RSPM (R 4.5.0)
## nlme 3.1-168 2025-03-31 [3] CRAN (R 4.5.0)
## nloptr 2.2.1 2025-03-17 [2] RSPM (R 4.5.0)
## NMF 0.28 2024-08-22 [2] RSPM (R 4.5.0)
## nnet 7.3-20 2025-01-01 [3] CRAN (R 4.5.0)
## nnls 1.6 2024-10-23 [2] RSPM (R 4.5.0)
## nnSVG 1.13.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## numDeriv 2016.8-1.1 2019-06-06 [2] RSPM (R 4.5.0)
## openssl 2.3.2 2025-02-03 [2] RSPM (R 4.5.0)
## openxlsx 4.2.8 2025-01-25 [2] RSPM (R 4.5.0)
## osfr 0.2.9 2022-09-25 [2] RSPM (R 4.5.0)
## OSTA 0.99.0 2025-04-30 [1] Bioconductor
## OSTA.data 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## paletteer 1.6.0 2024-01-21 [2] RSPM (R 4.5.0)
## pals 1.10 2025-03-07 [2] RSPM (R 4.5.0)
## parallel 4.5.0 2025-04-11 [3] local
## parallelly 1.43.0 2025-03-24 [2] RSPM (R 4.5.0)
## patchwork 1.3.0 2024-09-16 [2] RSPM (R 4.5.0)
## pbapply 1.7-2 2023-06-27 [2] RSPM (R 4.5.0)
## pbkrtest 0.5.4 2025-04-28 [2] RSPM (R 4.5.0)
## pbmcapply 1.5.1 2022-04-28 [2] RSPM (R 4.5.0)
## pbs 1.1 2013-06-08 [2] RSPM (R 4.5.0)
## pcaPP 2.0-5 2024-08-19 [2] RSPM (R 4.5.0)
## pheatmap 1.0.12 2019-01-04 [2] RSPM (R 4.5.0)
## pillar 1.10.2 2025-04-05 [2] RSPM (R 4.5.0)
## pkgbuild 1.4.7 2025-03-24 [2] RSPM (R 4.5.0)
## pkgconfig 2.0.3 2019-09-22 [2] RSPM (R 4.5.0)
## pkgdown 2.1.1 2024-09-17 [2] RSPM (R 4.5.0)
## pkgload 1.4.0 2024-06-28 [2] RSPM (R 4.5.0)
## plogr 0.2.0 2018-03-25 [2] RSPM (R 4.5.0)
## plotly 4.10.4 2024-01-13 [2] RSPM (R 4.5.0)
## plyr 1.8.9 2023-10-02 [2] RSPM (R 4.5.0)
## png 0.1-8 2022-11-29 [2] RSPM (R 4.5.0)
## polyclip 1.10-7 2024-07-23 [2] RSPM (R 4.5.0)
## polynom 1.4-1 2022-04-11 [2] RSPM (R 4.5.0)
## pracma 2.4.4 2023-11-10 [2] RSPM (R 4.5.0)
## praise 1.0.0 2015-08-11 [2] RSPM (R 4.5.0)
## preprocessCore 1.71.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## prettyunits 1.2.0 2023-09-24 [2] RSPM (R 4.5.0)
## prismatic 1.1.2 2024-04-10 [2] RSPM (R 4.5.0)
## pROC 1.18.5 2023-11-01 [2] RSPM (R 4.5.0)
## processx 3.8.6 2025-02-21 [2] RSPM (R 4.5.0)
## profvis 0.4.0 2024-09-20 [2] RSPM (R 4.5.0)
## progress 1.2.3 2023-12-06 [2] RSPM (R 4.5.0)
## progressr 0.15.1 2024-11-22 [2] RSPM (R 4.5.0)
## promises 1.3.2 2024-11-28 [2] RSPM (R 4.5.0)
## proxy 0.4-27 2022-06-09 [2] RSPM (R 4.5.0)
## ps 1.9.1 2025-04-12 [2] RSPM (R 4.5.0)
## purrr 1.0.4 2025-02-05 [2] RSPM (R 4.5.0)
## quadprog 1.5-8 2019-11-20 [2] RSPM (R 4.5.0)
## quantreg 6.1 2025-03-10 [2] RSPM (R 4.5.0)
## R.methodsS3 1.8.2 2022-06-13 [2] RSPM (R 4.5.0)
## R.oo 1.27.0 2024-11-01 [2] RSPM (R 4.5.0)
## R.utils 2.13.0 2025-02-24 [2] RSPM (R 4.5.0)
## R6 2.6.1 2025-02-15 [2] RSPM (R 4.5.0)
## ragg 1.4.0 2025-04-10 [2] RSPM (R 4.5.0)
## rainbow 3.8 2024-01-23 [2] RSPM (R 4.5.0)
## ranger 0.17.0 2024-11-08 [2] RSPM (R 4.5.0)
## RANN 2.6.2 2024-08-25 [2] RSPM (R 4.5.0)
## rapidjsonr 1.2.0 2020-03-08 [2] RSPM (R 4.5.0)
## rappdirs 0.3.3 2021-01-31 [2] RSPM (R 4.5.0)
## raster 3.6-32 2025-03-28 [2] RSPM (R 4.5.0)
## rbibutils 2.3 2024-10-04 [2] RSPM (R 4.5.0)
## rcmdcheck 1.4.0 2021-09-27 [2] RSPM (R 4.5.0)
## RColorBrewer 1.1-3 2022-04-03 [2] RSPM (R 4.5.0)
## Rcpp 1.0.14 2025-01-12 [2] RSPM (R 4.5.0)
## RcppAnnoy 0.0.22 2024-01-23 [2] RSPM (R 4.5.0)
## RcppArmadillo 14.4.2-1 2025-04-25 [2] RSPM (R 4.5.0)
## RcppDist 0.1.1 2018-10-28 [2] RSPM (R 4.5.0)
## RcppEigen 0.3.4.0.2 2024-08-24 [2] RSPM (R 4.5.0)
## RcppHNSW 0.6.0 2024-02-04 [2] RSPM (R 4.5.0)
## RcppHungarian 0.3 2023-09-05 [2] RSPM (R 4.5.0)
## RcppML 0.3.7 2021-09-21 [2] RSPM (R 4.5.0)
## RcppProgress 0.4.2 2020-02-06 [2] RSPM (R 4.5.0)
## RcppTOML 0.2.3 2025-03-08 [2] RSPM (R 4.5.0)
## RCurl 1.98-1.17 2025-03-22 [2] RSPM (R 4.5.0)
## rdist 0.0.5 2020-05-04 [2] RSPM (R 4.5.0)
## Rdpack 2.6.4 2025-04-09 [2] RSPM (R 4.5.0)
## readr 2.1.5 2024-01-10 [2] RSPM (R 4.5.0)
## reformulas 0.4.0 2024-11-03 [2] RSPM (R 4.5.0)
## refund 0.1-37 2024-09-20 [2] RSPM (R 4.5.0)
## registry 0.5-1 2019-03-05 [2] RSPM (R 4.5.0)
## rematch2 2.1.2 2020-05-01 [2] RSPM (R 4.5.0)
## remotes 2.5.0 2024-03-17 [2] RSPM (R 4.5.0)
## reshape2 1.4.4 2020-04-09 [2] RSPM (R 4.5.0)
## restfulr 0.0.15 2022-06-16 [2] RSPM (R 4.5.0)
## reticulate 1.42.0 2025-03-25 [2] RSPM (R 4.5.0)
## rhdf5 2.53.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## rhdf5filters 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## Rhdf5lib 1.31.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## RhpcBLASctl 0.23-42 2023-02-11 [2] RSPM (R 4.5.0)
## Rhtslib 3.5.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## Rigraphlib 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## rjson 0.2.23 2024-09-16 [2] RSPM (R 4.5.0)
## rlang 1.1.6 2025-04-11 [2] RSPM (R 4.5.0)
## RLRsim 3.1-8 2022-03-16 [2] RSPM (R 4.5.0)
## rmarkdown 2.29 2024-11-04 [2] RSPM (R 4.5.0)
## rngtools 1.5.2 2021-09-20 [2] RSPM (R 4.5.0)
## robustbase 0.99-4-1 2024-09-27 [2] RSPM (R 4.5.0)
## ROCR 1.0-11 2020-05-02 [2] RSPM (R 4.5.0)
## roxygen2 7.3.2 2024-06-28 [2] RSPM (R 4.5.0)
## rpart 4.1.24 2025-01-07 [3] CRAN (R 4.5.0)
## rprojroot 2.0.4 2023-11-05 [2] RSPM (R 4.5.0)
## RProtoBufLib 2.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## Rsamtools 2.25.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## RSpectra 0.16-2 2024-07-18 [2] RSPM (R 4.5.0)
## RSQLite 2.3.9 2024-12-03 [2] RSPM (R 4.5.0)
## rstatix 0.7.2 2023-02-01 [2] RSPM (R 4.5.0)
## rstudioapi 0.17.1 2024-10-22 [2] RSPM (R 4.5.0)
## rsvd 1.0.5 2021-04-16 [2] RSPM (R 4.5.0)
## rtracklayer 1.69.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## RTriangle 1.6-0.15 2025-04-14 [2] RSPM (R 4.5.0)
## Rtsne 0.17 2023-12-07 [2] RSPM (R 4.5.0)
## rversions 2.1.2 2022-08-31 [2] RSPM (R 4.5.0)
## s2 1.1.7 2024-07-17 [2] RSPM (R 4.5.0)
## S4Arrays 1.9.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## S4Vectors 0.47.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## sandwich 3.1-1 2024-09-15 [2] RSPM (R 4.5.0)
## sass 0.4.10 2025-04-11 [2] RSPM (R 4.5.0)
## ScaledMatrix 1.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## scales 1.4.0 2025-04-24 [2] RSPM (R 4.5.0)
## scater 1.37.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## scattermore 1.2 2023-06-12 [2] RSPM (R 4.5.0)
## scatterpie 0.2.4 2024-08-28 [2] RSPM (R 4.5.0)
## sccore 1.0.6 2025-04-13 [2] RSPM (R 4.5.0)
## scico 1.5.0 2023-08-14 [2] RSPM (R 4.5.0)
## scran 1.37.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## scrapper 1.3.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## sctransform 0.4.1 2023-10-19 [2] RSPM (R 4.5.0)
## scuttle 1.19.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## segmented 2.1-4 2025-02-28 [2] RSPM (R 4.5.0)
## servr 0.32 2024-10-04 [2] RSPM (R 4.5.0)
## sessioninfo 1.2.3 2025-02-05 [2] RSPM (R 4.5.0)
## Seurat 5.3.0 2025-04-23 [2] RSPM (R 4.5.0)
## SeuratObject 5.1.0 2025-04-22 [2] RSPM (R 4.5.0)
## sf 1.0-20 2025-03-24 [2] RSPM (R 4.5.0)
## SFEData 1.11.0 2025-04-17 [2] Bioconductor 3.22 (R 4.5.0)
## sfheaders 0.4.4 2024-01-17 [2] RSPM (R 4.5.0)
## shape 1.4.6.1 2024-02-23 [2] RSPM (R 4.5.0)
## shiny 1.10.0 2024-12-14 [2] RSPM (R 4.5.0)
## shinydashboard 0.7.3 2025-04-21 [2] RSPM (R 4.5.0)
## shinyWidgets 0.9.0 2025-02-21 [2] RSPM (R 4.5.0)
## SingleCellExperiment 1.31.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## SingleR 2.11.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## sitmo 2.0.2 2021-10-13 [2] RSPM (R 4.5.0)
## snow 0.4-4 2021-10-27 [2] RSPM (R 4.5.0)
## sourcetools 0.1.7-1 2023-02-01 [2] RSPM (R 4.5.0)
## sp 2.2-0 2025-02-01 [2] RSPM (R 4.5.0)
## spacesXYZ 1.5-1 2025-02-10 [2] RSPM (R 4.5.0)
## SpaceTrooper 0.1.0 2025-04-30 [2] Github (drisso/SpaceTrooper@3d5ec24)
## spacexr 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## spam 2.11-1 2025-01-20 [2] RSPM (R 4.5.0)
## SparseArray 1.9.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## SparseM 1.84-2 2024-07-17 [2] RSPM (R 4.5.0)
## sparseMatrixStats 1.21.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## spatial 7.3-18 2025-01-01 [3] CRAN (R 4.5.0)
## spatialEco 2.0-2 2023-11-17 [2] RSPM (R 4.5.0)
## SpatialExperiment 1.19.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## SpatialExperimentIO 1.1.0 2025-04-20 [2] Bioconductor 3.22 (R 4.5.0)
## spatialFDA 1.1.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## SpatialFeatureExperiment 1.11.0 2025-04-20 [2] Bioconductor 3.22 (R 4.5.0)
## spatialLIBD 1.21.1 2025-04-24 [2] Bioconductor 3.22 (R 4.5.0)
## spatialreg 1.3-6 2024-12-02 [2] RSPM (R 4.5.0)
## spatstat 3.3-2 2025-03-22 [2] RSPM (R 4.5.0)
## spatstat.data 3.1-6 2025-03-17 [2] RSPM (R 4.5.0)
## spatstat.explore 3.4-2 2025-03-21 [2] RSPM (R 4.5.0)
## spatstat.geom 3.3-6 2025-03-18 [2] RSPM (R 4.5.0)
## spatstat.linnet 3.2-5 2025-01-22 [2] RSPM (R 4.5.0)
## spatstat.model 3.3-5 2025-03-22 [2] RSPM (R 4.5.0)
## spatstat.random 3.3-3 2025-03-19 [2] RSPM (R 4.5.0)
## spatstat.sparse 3.1-0 2024-06-21 [2] RSPM (R 4.5.0)
## spatstat.univar 3.1-2 2025-03-05 [2] RSPM (R 4.5.0)
## spatstat.utils 3.1-3 2025-03-15 [2] RSPM (R 4.5.0)
## spData 2.3.4 2025-01-08 [2] RSPM (R 4.5.0)
## spdep 1.3-11 2025-04-24 [2] RSPM (R 4.5.0)
## splines 4.5.0 2025-04-11 [3] local
## SpotSweeper 1.5.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## stars 0.6-8 2025-02-01 [2] RSPM (R 4.5.0)
## Statial 1.11.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## statmod 1.5.0 2023-01-06 [2] RSPM (R 4.5.0)
## stats * 4.5.0 2025-04-11 [3] local
## stats4 4.5.0 2025-04-11 [3] local
## STexampleData 1.17.0 2025-04-17 [2] Bioconductor 3.22 (R 4.5.0)
## stringdist 0.9.15 2025-01-10 [2] RSPM (R 4.5.0)
## stringi 1.8.7 2025-03-27 [2] RSPM (R 4.5.0)
## stringr 1.5.1 2023-11-14 [2] RSPM (R 4.5.0)
## SummarizedExperiment 1.39.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## survival 3.8-3 2024-12-17 [3] CRAN (R 4.5.0)
## svglite 2.1.3 2023-12-08 [2] RSPM (R 4.5.0)
## svgPanZoom 0.3.4 2020-02-15 [2] RSPM (R 4.5.0)
## sys 3.4.3 2024-10-04 [2] RSPM (R 4.5.0)
## systemfonts 1.2.2 2025-04-04 [2] RSPM (R 4.5.0)
## tcltk 4.5.0 2025-04-11 [3] local
## tensor 1.5 2012-05-05 [2] RSPM (R 4.5.0)
## TENxIO 1.11.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## terra 1.8-42 2025-04-02 [2] RSPM (R 4.5.0)
## testthat 3.2.3 2025-01-13 [2] RSPM (R 4.5.0)
## textshaping 1.0.0 2025-01-20 [2] RSPM (R 4.5.0)
## TH.data 1.1-3 2025-01-17 [2] RSPM (R 4.5.0)
## tibble 3.2.1 2023-03-20 [2] RSPM (R 4.5.0)
## tidygraph 1.3.1 2024-01-30 [2] RSPM (R 4.5.0)
## tidyr 1.3.1 2024-01-24 [2] RSPM (R 4.5.0)
## tidyselect 1.2.1 2024-03-11 [2] RSPM (R 4.5.0)
## tidytree 0.4.6 2023-12-12 [2] RSPM (R 4.5.0)
## tiff 0.1-12 2023-11-28 [2] RSPM (R 4.5.0)
## tinytex 0.57 2025-04-15 [2] RSPM (R 4.5.0)
## tmap 4.0 2025-01-27 [2] RSPM (R 4.5.0)
## tmaptools 3.2 2025-01-13 [2] RSPM (R 4.5.0)
## tools 4.5.0 2025-04-11 [3] local
## treeio 1.33.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## treekoR 1.17.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## triebeard 0.4.1 2023-03-04 [2] RSPM (R 4.5.0)
## tweenr 2.0.3 2024-02-26 [2] RSPM (R 4.5.0)
## tzdb 0.5.0 2025-03-15 [2] RSPM (R 4.5.0)
## UCSC.utils 1.5.0 2025-04-17 [2] Bioconductor 3.22 (R 4.5.0)
## units 0.8-7 2025-03-11 [2] RSPM (R 4.5.0)
## urlchecker 1.0.1 2021-11-30 [2] RSPM (R 4.5.0)
## urltools 1.7.3 2019-04-14 [2] RSPM (R 4.5.0)
## usethis 3.1.0 2024-11-26 [2] RSPM (R 4.5.0)
## utf8 1.2.4 2023-10-22 [2] RSPM (R 4.5.0)
## utils * 4.5.0 2025-04-11 [3] local
## uuid 1.2-1 2024-07-29 [2] RSPM (R 4.5.0)
## uwot 0.2.3 2025-02-24 [2] RSPM (R 4.5.0)
## V8 6.0.3 2025-03-26 [2] RSPM (R 4.5.0)
## vctrs 0.6.5 2023-12-01 [2] RSPM (R 4.5.0)
## vipor 0.4.7 2023-12-18 [2] RSPM (R 4.5.0)
## viridis 0.6.5 2024-01-29 [2] RSPM (R 4.5.0)
## viridisLite 0.4.2 2023-05-02 [2] RSPM (R 4.5.0)
## VisiumIO 1.5.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## Voyager 1.11.0 2025-04-20 [2] Bioconductor 3.22 (R 4.5.0)
## vroom 1.6.5 2023-12-05 [2] RSPM (R 4.5.0)
## waldo 0.6.1 2024-11-07 [2] RSPM (R 4.5.0)
## whisker 0.4.1 2022-12-05 [2] RSPM (R 4.5.0)
## withr 3.0.2 2024-10-28 [2] RSPM (R 4.5.0)
## wk 0.9.4 2024-10-11 [2] RSPM (R 4.5.0)
## wrMisc 1.15.3.1 2025-04-01 [2] RSPM (R 4.5.0)
## xfun 0.52 2025-04-02 [2] RSPM (R 4.5.0)
## xgboost 1.7.10.1 2025-04-22 [2] RSPM (R 4.5.0)
## XML 3.99-0.18 2025-01-01 [2] RSPM (R 4.5.0)
## xml2 1.3.8 2025-03-14 [2] RSPM (R 4.5.0)
## xopen 1.0.1 2024-04-25 [2] RSPM (R 4.5.0)
## xtable 1.8-4 2019-04-21 [2] RSPM (R 4.5.0)
## XVector 0.49.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## yaml 2.3.10 2024-07-26 [2] RSPM (R 4.5.0)
## yulab.utils 0.2.0 2025-01-29 [2] RSPM (R 4.5.0)
## zeallot 0.1.0 2018-01-28 [2] RSPM (R 4.5.0)
## zellkonverter 1.19.0 2025-04-15 [2] Bioconductor 3.22 (R 4.5.0)
## zip 2.3.2 2025-02-01 [2] RSPM (R 4.5.0)
## zoo 1.8-14 2025-04-10 [2] RSPM (R 4.5.0)
##
## [1] /tmp/RtmpolkEvK/Rinstbd2b968491
## [2] /usr/local/lib/R/site-library
## [3] /usr/local/lib/R/library
## * ── Packages attached to the search path.
##
## ─ Python configuration ────────────────────────────────────────────────────
## Python is not available
##
## ───────────────────────────────────────────────────────────────────────────