Hi Vladimir, thanks for that update. That is not how rds files are normally loaded in R, so it might help to note that you need Seurat and their readRDS if that is at all possible (I realize their might be constraints). (and I will follow up with them...an rds file, for R should be readable via load) I very much appreciate your help here - Robert ________________________________________ From: Vladimir Kiselev &lt;vk6(a)sanger.ac.uk&gt; Sent: Wednesday, October 28, 2020 3:20 AM To: Gentleman, Robert C.; cv19caingest(a)sanger.ac.uk Subject: Re: [Cv19caingest] want to report a problem [EXT] Hi Robert, I was able to load the dataset in the development version of R (which is higher than 4.0): ******** An object of class Seurat 52722 features across 44721 samples within 2 assays Active assay: SCT (26361 features, 3000 variable features) 1 other assay present: RNA 2 dimensional reductions calculated: pca, umap R Under development (unstable) (2020-09-24 r79253) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS High Sierra 10.13.6 Matrix products: default BLAS: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRblas.dylib LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib locale: [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] Seurat_3.2.2 loaded via a namespace (and not attached): [1] nlme_3.1-149 matrixStats_0.56.0 RcppAnnoy_0.0.16 [4] RColorBrewer_1.1-2 httr_1.4.2 sctransform_0.3.1 [7] tools_4.1.0 R6_2.4.1 irlba_2.3.3 [10] rpart_4.1-15 KernSmooth_2.23-17 uwot_0.1.8 [13] lazyeval_0.2.2 mgcv_1.8-33 colorspace_1.4-1 [16] tidyselect_1.1.0 gridExtra_2.3 compiler_4.1.0 [19] plotly_4.9.2.1 scales_1.1.1 lmtest_0.9-38 [22] spatstat.data_1.4-3 ggridges_0.5.2 pbapply_1.4-3 [25] spatstat_1.64-1 goftest_1.2-2 stringr_1.4.0 [28] digest_0.6.25 spatstat.utils_1.17-0 pkgconfig_2.0.3 [31] htmltools_0.5.0 fastmap_1.0.1 htmlwidgets_1.5.2 [34] rlang_0.4.7 shiny_1.5.0 generics_0.0.2 [37] zoo_1.8-8 jsonlite_1.7.1 ica_1.0-2 [40] dplyr_1.0.2 magrittr_1.5 patchwork_1.0.1 [43] Matrix_1.2-18 Rcpp_1.0.5 munsell_0.5.0 [46] abind_1.4-5 reticulate_1.18 lifecycle_0.2.0 [49] stringi_1.5.3 MASS_7.3-53 Rtsne_0.15 [52] plyr_1.8.6 grid_4.1.0 parallel_4.1.0 [55] listenv_0.8.0 promises_1.1.1 ggrepel_0.8.2 [58] crayon_1.3.4 miniUI_0.1.1.1 deldir_0.1-29 [61] lattice_0.20-41 cowplot_1.1.0 splines_4.1.0 [64] tensor_1.5 pillar_1.4.6 tcltk_4.1.0 [67] igraph_1.2.6 future.apply_1.6.0 reshape2_1.4.4 [70] codetools_0.2-16 leiden_0.3.3 glue_1.4.2 [73] data.table_1.13.2 png_0.1-7 vctrs_0.3.4 [76] httpuv_1.5.4 gtable_0.3.0 RANN_2.6.1 [79] purrr_0.3.4 polyclip_1.10-0 tidyr_1.1.2 [82] future_1.19.1 ggplot2_3.3.2 rsvd_1.0.3 [85] mime_0.9 xtable_1.8-4 later_1.1.0.1 [88] survival_3.2-3 viridisLite_0.3.0 tibble_3.0.3 [91] cluster_2.1.0 globals_0.13.1 fitdistrplus_1.1-1 [94] ellipsis_0.3.1 ROCR_1.0-11 ******** Could you check again on your side? We will also add md5sums to the website later today. Hope this helps, Cheers, Vlad -- Vladimir Kiselev CellGen Informatics<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.sang… Team Leader Wellcome Sanger Institute Wellcome Genome Campus Hinxton, Cambridge, CB10 1SA Phone: +44 (0) 1223 496850 Message: Mattermost<https://urldefense.proofpoint.com/v2/url?u=https-3A__mattermo… or Slack<https://urldefense.proofpoint.com/v2/url?u=https-3A__cellgeni.slac… Web: https://urldefense.proofpoint.com/v2/url?u=https-3A__wikiselev.github.io&am… <https://urldefense.proofpoint.com/v2/url?u=https-3A__wikiselev.github.io&d=DwMGaQ&c=WO-RGvefibhHBZq3fL85hQ&r=U4lmOpNHWVbBztHmGq6Nv15pwsWhtz-F6dNkMHDy5Q4&m=QEntcu84Iyh8Im-pBBXDxM_2_vuhjXhAzbnaw6BrYOs&s=4tCB0zM5_1uW5L3mxMSAbme75unAkLELhIBFXQQ_pKM&e=> From: "Gentleman, Robert C." &lt;Robert_Gentleman(a)hms.harvard.edu&gt; Date: Monday, 26 October 2020 at 17:05 To: &quot;cv19caingest(a)sanger.ac.uk&quot; &lt;cv19caingest(a)sanger.ac.uk&gt; Subject: [Cv19caingest] want to report a problem [EXT] Hi Sorry to send to this address but I could not find out where to report problems. I wanted to download and use this file https://urldefense.proofpoint.com/v2/url?u=https-3A__hosted-2Dmatrices-2Dpr… Which is supposed to be an R data set, unfortunately it is not and is corrupted or otherwise not valid (could be they used a very old version of R, but no information is provided on your website). It would be helpful to provide md5 checksums or other tools to help validate downloads etc. Robert -- The Wellcome Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE.