R: Uniform Data Model and 'Zarr' Interchange for Single-Cell Omics

# Uniform Data Model and 'Zarr' Interchange for Single-Cell Omics

## Documentation for package ‘lstar’ version 0.1.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

collection_from | Assemble a collection of heterogeneous samples from per-sample objects.
col_sum_by_group | Per-(group, gene) sufficient stats over a CSC measure (the shared libstar kernel).
field_value | Accessor: a field's value by name.
lstar_markers | Tidy marker table for a factor's DE bundle.
lstar_read | Read an L* Zarr store into an R dataset.
lstar_read_block | Read a contiguous gene (column) range of a CSC measure from an L* store, bounded-memory.
lstar_read_genes | Read an arbitrary set of gene columns of a CSC measure, returning cells x genes.
lstar_stream_col_sum_by_group | Per-(group, gene) sums of a CSC measure in a store, streamed and bounded-memory.
lstar_write | Write an R dataset to an L* Zarr store.
print.lstar_dataset | Print an L* dataset
read_conos | Reconstruct a Conos object from an L* collection
read_sce | Read a SingleCellExperiment into an L* dataset.
read_sce_backed | Open an .h5ad's expression matrix as a disk-backed SingleCellExperiment assay (via HDF5Array).
read_seurat | Read a Seurat object into an L* dataset.
read_seurat_backed | Open an .h5ad's expression matrix as a disk-backed Seurat v5 assay (via BPCells).
stream_col_stats | Per-gene mean/variance of a CSC measure in a store, read with bounded memory.
write_conos | Build an L* dataset from a Conos object (a collection of samples).
write_pagoda2 | Export a Pagoda2 object to an L* (*.lstar.zarr) store.
write_sce | Build a SingleCellExperiment from an L* dataset.
write_seurat | Build a Seurat object from an L* dataset.