# xenLite This package experimentally explores an S4 class and methods for 10x Xenium demonstration data in Open Storage Network. ## Installation ``` BiocManager::install("vjcitn/xenLite") ``` ## Basics The package - defines a class `XenSPEP` that extends SpatialExperiment, accommodating geometry information for cells, nuclei, and transcripts in parquet files that as of 0.0.17 are ingested by `arrow::read_parquet(..., as_data_frame=FALSE)`. RAM consumption can be significant. - includes functions to retrieve example data from NSF Open Storage Network buckets A [pkgdown site](https://vjcitn.github.io/xenLite) is available. ## Interaction A shiny app is available. Some screenshots of earlier versions follow. The rectangle shows a region of interest, selectable using sliders:  The details can include positions of transcripts for selected genes:  CD4-expressing cells seem spatially complementary to those expressing EPCAM.  An example is available at [shinyapps.io](https://vjcitn.shinyapps.io/XenLUAD).