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scConvert
0.2.1
Reference
Articles
Getting Started
Getting Started with scConvert
Seurat <-> AnnData (h5ad): Real-Data Workflow with Python Validation
CLI & Performance
CLI Binary: Batch Conversion with R and Python Validation
Atlas-Scale Conversion: 592K Cells in Under a Second
Format Guides
Zarr Format: Cloud-Native Storage with Python zarr Validation
Loom Format: HDF5 Interop with loompy and scVelo
Seurat <-> SingleCellExperiment: Bioconductor Interoperability
Multimodal CITE-seq with MuData (h5mu): Real CBMC Data
SpatialData Zarr: The scverse Spatial Standard
Analysis Workflows
CITE-seq Workflow: RNA + Protein with Real CBMC Data
scATAC-seq: Converting Peak-by-Cell Matrices to h5ad
Spatial Transcriptomics: Visium Data with Seurat and squidpy
Spatial Transcriptomics: NanoString CosMx SMI
CELLxGENE Census: Query 60M Cells and Export to scverse
Benchmarks & Ecosystem
Benchmark: scConvert vs anndataR, schard, zellkonverter, and scNT
Changelog
User cache directory for scConvert
Source:
R/ZarrRemote.R
dot-scconvert_cache_dir.Rd
User cache directory for scConvert
Usage
.scconvert_cache_dir
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