Scripts for analyzing scATAC-seq data, generated from rat metrial gland tissues on gestational day (GD) 15.5 and 19.5.

Session info

sessionInfo()
#> R version 4.0.2 (2020-06-22)
#> 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/openblas-pthread/libblas.so.3
#> LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3
#> 
#> 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] parallel  stats4    stats     graphics  grDevices utils     datasets 
#> [8] methods   base     
#> 
#> other attached packages:
#>  [1] ggplot2_3.3.6        biomaRt_2.44.4       patchwork_1.0.1     
#>  [4] GenomicRanges_1.40.0 GenomeInfoDb_1.24.2  IRanges_2.22.2      
#>  [7] S4Vectors_0.26.1     BiocGenerics_0.34.0  SeuratObject_4.0.4  
#> [10] Seurat_4.1.0         Signac_1.5.0        

Citation: CORE CONSERVED TRANSCRIPTIONAL REGULATORY NETWORKS DEFINE THE INVASIVE TROPHOBLAST CELL LINEAGE, Ha T.H. Vu*, Regan L. Scott*, Khursheed Iqbal, Michael J. Soares, Geetu Tuteja, bioRvix doi: https://doi.org/10.1101/2023.03.30.534962