celltalker
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Bug in compare_group_interactions
Hi celltalkerTeam When I tried to run demo in different released version of celltalker, I'm stuck in the same site as follows.
> group_stats <- compare_group_interactions(seurat_object=ser_obj,
+ interaction_stats=top_stats_tonsil,
+ sample_replicates="sample_id",
+ sample_groups="sample_type",
+ metadata_grouping="cell_types")
Error in `dplyr::select()`:
! <text>:1:5: unexpected symbol
1: Use of
^
Backtrace:
1. celltalker::compare_group_interactions(...)
6. dplyr:::select.data.frame(...)
And I checked the function compare_group_interactions
but just no cule.
R version 4.2.1 (2022-06-23)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.4 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8
[6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] magrittr_2.0.3 dplyr_1.0.10 sp_1.5-0 SeuratObject_4.1.2 Seurat_4.2.0 celltalker_0.0.6.9000
loaded via a namespace (and not attached):
[1] Rtsne_0.16 colorspace_2.0-3 deldir_1.0-6 ellipsis_0.3.2 ggridges_0.5.4 rprojroot_2.0.3 circlize_0.4.15
[8] GlobalOptions_0.1.2 fs_1.5.2 spatstat.data_3.0-0 rstudioapi_0.14 farver_2.1.1 leiden_0.4.3 listenv_0.8.0
[15] remotes_2.4.2 ggrepel_0.9.1 fansi_1.0.3 codetools_0.2-18 splines_4.2.1 cachem_1.0.6 knitr_1.40
[22] polyclip_1.10-4 pkgload_1.3.0 jsonlite_1.8.3 ica_1.0-3 cluster_2.1.3 png_0.1-7 rgeos_0.5-9
[29] uwot_0.1.14 spatstat.sparse_3.0-0 shiny_1.7.2 sctransform_0.3.5 compiler_4.2.1 httr_1.4.4 assertthat_0.2.1
[36] Matrix_1.5-1 fastmap_1.1.0 lazyeval_0.2.2 cli_3.4.1 later_1.3.0 htmltools_0.5.3 prettyunits_1.1.1
[43] tools_4.2.1 igraph_1.3.5 gtable_0.3.1 glue_1.6.2 RANN_2.6.1 reshape2_1.4.4 Rcpp_1.0.9
[50] scattermore_0.8 vctrs_0.4.2 nlme_3.1-157 progressr_0.11.0 lmtest_0.9-40 spatstat.random_2.2-0 stringr_1.4.1
[57] xfun_0.33 globals_0.16.1 ps_1.7.1 mime_0.12 miniUI_0.1.1.1 lifecycle_1.0.1 irlba_2.3.5.1
[64] devtools_2.4.3 goftest_1.2-3 future_1.28.0 MASS_7.3-57 zoo_1.8-11 scales_1.2.1 spatstat.core_2.4-4
[71] spatstat.utils_3.0-1 promises_1.2.0.1 parallel_4.2.1 RColorBrewer_1.1-3 curl_4.3.3 gridExtra_2.3 memoise_2.0.1
[78] reticulate_1.26 pbapply_1.5-0 ggplot2_3.3.6 rpart_4.1.16 stringi_1.7.8 pkgbuild_1.3.1 shape_1.4.6
[85] rlang_1.0.4 pkgconfig_2.0.3 matrixStats_0.62.0 lattice_0.20-45 tensor_1.5 ROCR_1.0-11 purrr_0.3.5
[92] labeling_0.4.2 patchwork_1.1.1 htmlwidgets_1.5.4 cowplot_1.1.1 processx_3.7.0 tidyselect_1.2.0 parallelly_1.32.1
[99] RcppAnnoy_0.0.19 plyr_1.8.7 R6_2.5.1 generics_0.1.3 DBI_1.1.3 mgcv_1.8-40 pillar_1.8.1
[106] withr_2.5.0 fitdistrplus_1.1-8 abind_1.4-5 survival_3.2-13 tibble_3.1.8 future.apply_1.9.1 crayon_1.5.2
[113] KernSmooth_2.23-20 utf8_1.2.2 spatstat.geom_2.4-0 plotly_4.10.0 usethis_2.1.6 grid_4.2.1 data.table_1.14.2
[120] callr_3.7.2 digest_0.6.30 xtable_1.8-4 tidyr_1.2.1 httpuv_1.6.6 munsell_0.5.0 viridisLite_0.4.1
[127] sessioninfo_1.2.2
Could you give me some help about it? Thanks. And my env info is above.