Last updated: 2019-03-04

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TSNE plots of all Frontal Cortex cells in the study

These plots show the level of expression diversity among all Frontal cortex cells. Cells are colored based on cell class.

Colored by subgroup labels

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Version Author Date
a1bf7ee Yasin Kaymaz 2019-03-04

Excitatory (Ex) and inhibitory (In) neuronal subtypes in the cortex; distinct cerebellar granule (Gran) cells and Purkinje (Purk) neurons; and non-neuronal cells, including endothelial (End) cells, smooth muscle cells or pericytes, astrocytes (Ast), oligodendrocytes (Oli) and their precursor cells (OPCs), and microglia (Mic).

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Session information

sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-apple-darwin17.5.0 (64-bit)
Running under: macOS  10.14.3

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
 [1] bindrcpp_0.2.2  forcats_0.3.0   stringr_1.4.0   purrr_0.2.5    
 [5] readr_1.1.1     tidyr_0.8.1     tibble_2.0.1    tidyverse_1.2.1
 [9] dplyr_0.7.6     Seurat_2.3.3    Matrix_1.2-14   cowplot_0.9.3  
[13] here_0.1        DT_0.4          plotly_4.8.0    ggplot2_3.1.0  

loaded via a namespace (and not attached):
  [1] diffusionMap_1.1-0   Rtsne_0.15           colorspace_1.4-0    
  [4] class_7.3-14         modeltools_0.2-22    ggridges_0.5.0      
  [7] mclust_5.4.1         rprojroot_1.3-2      htmlTable_1.12      
 [10] base64enc_0.1-3      rstudioapi_0.8       proxy_0.4-22        
 [13] flexmix_2.3-14       bit64_0.9-7          lubridate_1.7.4     
 [16] mvtnorm_1.0-8        xml2_1.2.0           codetools_0.2-15    
 [19] splines_3.5.0        R.methodsS3_1.7.1    robustbase_0.93-1   
 [22] knitr_1.20           Formula_1.2-3        jsonlite_1.6        
 [25] workflowr_1.1.1      broom_0.5.0          ica_1.0-2           
 [28] cluster_2.0.7-1      kernlab_0.9-26       png_0.1-7           
 [31] R.oo_1.22.0          compiler_3.5.0       httr_1.3.1          
 [34] backports_1.1.2      assertthat_0.2.0     lazyeval_0.2.1      
 [37] cli_1.0.1            lars_1.2             acepack_1.4.1       
 [40] htmltools_0.3.6      tools_3.5.0          igraph_1.2.1        
 [43] gtable_0.2.0         glue_1.3.0           reshape2_1.4.3      
 [46] RANN_2.6             Rcpp_1.0.0           cellranger_1.1.0    
 [49] trimcluster_0.1-2    gdata_2.18.0         ape_5.1             
 [52] nlme_3.1-137         iterators_1.0.10     fpc_2.1-11          
 [55] lmtest_0.9-36        rvest_0.3.2          irlba_2.3.2         
 [58] gtools_3.8.1         DEoptimR_1.0-8       zoo_1.8-3           
 [61] MASS_7.3-50          scales_1.0.0         hms_0.4.2           
 [64] doSNOW_1.0.16        parallel_3.5.0       RColorBrewer_1.1-2  
 [67] yaml_2.2.0           reticulate_1.9       pbapply_1.4-0       
 [70] gridExtra_2.3        segmented_0.5-3.0    rpart_4.1-13        
 [73] latticeExtra_0.6-28  stringi_1.2.4        foreach_1.4.4       
 [76] checkmate_1.8.5      caTools_1.17.1       SDMTools_1.1-221    
 [79] rlang_0.3.1          pkgconfig_2.0.2      dtw_1.20-1          
 [82] prabclus_2.2-6       bitops_1.0-6         evaluate_0.10.1     
 [85] lattice_0.20-35      ROCR_1.0-7           bindr_0.1.1         
 [88] labeling_0.3         htmlwidgets_1.2      bit_1.1-14          
 [91] tidyselect_0.2.4     plyr_1.8.4           magrittr_1.5        
 [94] R6_2.3.0             snow_0.4-3           gplots_3.0.1        
 [97] Hmisc_4.1-1          haven_1.1.2          pillar_1.3.1        
[100] whisker_0.3-2        foreign_0.8-70       withr_2.1.2         
[103] mixtools_1.1.0       fitdistrplus_1.0-9   survival_2.42-6     
[106] scatterplot3d_0.3-41 nnet_7.3-12          tsne_0.1-3          
[109] modelr_0.1.2         crayon_1.3.4         hdf5r_1.0.1         
[112] KernSmooth_2.23-15   rmarkdown_1.10       readxl_1.1.0        
[115] grid_3.5.0           data.table_1.11.4    git2r_0.23.0        
[118] metap_0.9            digest_0.6.18        diptest_0.75-7      
[121] R.utils_2.6.0        stats4_3.5.0         munsell_0.5.0       
[124] viridisLite_0.3.0

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