CreatSeuratObject command issue

Question

[sandy]

Hello everyone,

I am trying to create an object on R, however the system says

Error in CreatSeuratObject(counts = p1, min.features = 200, min.cells = 3,  : 
  could not find function "CreatSeuratObject". 

My code is:

p1<-CreatSeuratObject(counts = p1, min.features = 200, min.cells = 3, project='panc_health')

Session info:
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       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] ggthemes_4.2.4     RColorBrewer_1.1-3 patchwork_1.1.2    ggplot2_3.3.6     
 [5] Matrix_1.5-1       cowplot_1.1.1      sp_1.5-0           SeuratObject_4.1.2
 [9] Seurat_4.2.0       dplyr_1.0.10       readr_2.1.3       

loaded via a namespace (and not attached):
  [1] Rtsne_0.16            colorspace_2.0-3      deldir_1.0-6         
  [4] ellipsis_0.3.2        ggridges_0.5.4        spatstat.data_3.0-0  
  [7] leiden_0.4.3          listenv_0.8.0         ggrepel_0.9.1        
 [10] bit64_4.0.5           fansi_1.0.3           codetools_0.2-18     
 [13] splines_4.0.5         polyclip_1.10-4       jsonlite_1.8.3       
 [16] ica_1.0-3             cluster_2.1.3         png_0.1-7            
 [19] rgeos_0.5-9           uwot_0.1.14           shiny_1.7.3          
 [22] sctransform_0.3.5     spatstat.sparse_3.0-0 compiler_4.0.5       
 [25] httr_1.4.4            fastmap_1.1.0         lazyeval_0.2.2       
 [28] cli_3.4.1             later_1.3.0           htmltools_0.5.3      
 [31] tools_4.0.5           igraph_1.3.5          gtable_0.3.1         
 [34] glue_1.6.2            RANN_2.6.1            reshape2_1.4.4       
 [37] Rcpp_1.0.9            scattermore_0.8       vctrs_0.5.0          
 [40] nlme_3.1-159          progressr_0.11.0      lmtest_0.9-40        
 [43] spatstat.random_2.2-0 stringr_1.4.1         globals_0.16.1       
 [46] mime_0.12             miniUI_0.1.1.1        lifecycle_1.0.3      
 [49] irlba_2.3.5.1         goftest_1.2-3         future_1.28.0        
 [52] MASS_7.3-58.1         zoo_1.8-11            scales_1.2.1         
 [55] spatstat.core_2.4-4   vroom_1.6.0           hms_1.1.2            
 [58] promises_1.2.0.1      spatstat.utils_3.0-1  parallel_4.0.5       
 [61] reticulate_1.26       pbapply_1.5-0         gridExtra_2.3        
 [64] rpart_4.1.16          stringi_1.7.8         rlang_1.0.6          
 [67] pkgconfig_2.0.3       matrixStats_0.62.0    lattice_0.20-45      
 [70] ROCR_1.0-11           purrr_0.3.5           tensor_1.5           
 [73] htmlwidgets_1.5.4     bit_4.0.4             tidyselect_1.2.0     
 [76] parallelly_1.32.1     RcppAnnoy_0.0.20      plyr_1.8.7           
 [79] magrittr_2.0.3        R6_2.5.1              generics_0.1.3       
 [82] pillar_1.8.1          withr_2.5.0           mgcv_1.8-40          
 [85] fitdistrplus_1.1-8    survival_3.4-0        abind_1.4-5          
 [88] tibble_3.1.8          future.apply_1.9.1    crayon_1.5.2         
 [91] KernSmooth_2.23-20    utf8_1.2.2            spatstat.geom_3.0-3  
 [94] plotly_4.10.0         tzdb_0.3.0            grid_4.0.5           
 [97] data.table_1.14.4     digest_0.6.30         xtable_1.8-4         
[100] tidyr_1.2.1           httpuv_1.6.6          munsell_0.5.0        
[103] viridisLite_0.4.1    

Answer 1

[M.O.L.S]

CreateSeuratObject is a function. You have a typo in this as you are missing the e in create.

[sandy]

Thank you so much. Problem solved!

I meet anther problem, and the R said: Error in UseMethod(generic = "as.sparse", object = x) : no applicable method for 'as.sparse' applied to an object of class "Seurat".

I used Read10X to read my features, matrix, and barcode.gz files. I wonder if you could know what should I do to fix this problem

[M.O.L.S]

You want to use as sparse method on a matrix but instead of using the matrix you are using it on p1. (Maybe). What is the variable name for the matrix?