cellexalvrR is an R package to prep single-cell expression data for exploration/use in our virtual realitiy data analysis platform CellexalVR (on github), and also to provide back-end functions that perform in-session calculations.
install.packages("devtools")
devtools::install_github("sonejilab/cellexalvrR" )
library(cellexalvrR)
cellexalvrR is productively used under R 4.0.2 and 4.1.0.
The vignette detailing how to use the package to prepare data for CellexalVR can be found here. It shows how to create a cellexalvr object ready for export, and also describes a couple of functions to make converting formats and making metadata easier.
The most up to date vignette about data import and export can be found here.
Linear selections and post VR reporting for linear selections can be found here. The portable log zip file created in this vignette can be downloaded from here.
R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19043)
Matrix products: default
locale:
[1] LC_COLLATE=English_Sweden.1252 LC_CTYPE=English_Sweden.1252
[3] LC_MONETARY=English_Sweden.1252 LC_NUMERIC=C
[5] LC_TIME=English_Sweden.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] cellexalvrR_0.14.8 Matrix_1.3-4
loaded via a namespace (and not attached):
[1] Rcpp_1.0.7 compiler_4.1.0 GenomeInfoDb_1.28.4
[4] XVector_0.32.0 R.methodsS3_1.8.1 R.utils_2.11.0
[7] bitops_1.0-7 tools_4.1.0 zlibbioc_1.38.0
[10] bit_4.0.4 RSQLite_2.2.8 memoise_2.0.1
[13] lattice_0.20-45 pkgconfig_2.0.3 png_0.1-7
[16] rlang_0.4.12 graph_1.70.0 DBI_1.1.1
[19] parallel_4.1.0 SparseM_1.81 xfun_0.28
[22] topGO_2.44.0 fastmap_1.1.0 GenomeInfoDbData_1.2.6
[25] stringr_1.4.0 knitr_1.36 org.Mm.eg.db_3.13.0
[28] httr_1.4.2 Biostrings_2.60.2 S4Vectors_0.30.2
[31] vctrs_0.3.8 IRanges_2.26.0 stats4_4.1.0
[34] bit64_4.0.5 grid_4.1.0 Biobase_2.52.0
[37] R6_2.5.1 AnnotationDbi_1.54.1 bookdown_0.24
[40] magrittr_2.0.1 GO.db_3.13.0 blob_1.2.2
[43] org.Hs.eg.db_3.13.0 matrixStats_0.61.0 BiocGenerics_0.38.0
[46] FastWilcoxTest_0.1.16 KEGGREST_1.32.0 stringi_1.7.5
[49] RCurl_1.98-1.5 cachem_1.0.6 crayon_1.4.2
[52] R.oo_1.24.0