Issues

• Discussion: other formats worth supporting in adata convert

  enhancement
  cellgeni/adata-cli#31 · Filter by author Claptar opened on Sep 24, 2026

• Convert: Parse Biosciences split-pipe outputs

  enhancement
  cellgeni/adata-cli#30 · Filter by author Claptar opened on Sep 24, 2026

• Convert: CellBender remove-background output h5

  enhancement
  cellgeni/adata-cli#29 · Filter by author Claptar opened on Sep 24, 2026

• Convert: pycistopic CistopicObject pickles

  enhancement
  cellgeni/adata-cli#28 · Filter by author Claptar opened on Sep 24, 2026

• Convert: SCope looms from SCENIC+, pySCENIC and pycistopic

  enhancement
  cellgeni/adata-cli#27 · Filter by author Claptar opened on Sep 24, 2026

• Convert: loom (generic and velocyto), import and export

  enhancement
  cellgeni/adata-cli#26 · Filter by author Claptar opened on Sep 24, 2026

• Convert: generic HDF5 matrix and delimited text files

  enhancement
  cellgeni/adata-cli#25 · Filter by author Claptar opened on Sep 24, 2026

• Convert: MTX and 10x MTX folders, import and export (streaming)

  enhancement
  cellgeni/adata-cli#24 · Filter by author Claptar opened on Sep 24, 2026

• Convert: 10x HDF5 (Cell Ranger *_feature_bc_matrix.h5), import and export

  enhancement
  cellgeni/adata-cli#23 · Filter by author Claptar opened on Sep 24, 2026

• Convert: h5ad ↔ zarr

  enhancement
  cellgeni/adata-cli#22 · Filter by author Claptar opened on Sep 24, 2026

• Rename matrix convert to recast, and add the adata convert format framework

  enhancement
  cellgeni/adata-cli#21 · Filter by author Claptar opened on Sep 24, 2026

• Epic: format conversion — adata convert to and from h5ad/zarr

  enhancement
  cellgeni/adata-cli#20 · Filter by author Claptar opened on Sep 24, 2026

• Feature requests: piping into stdout, arbitrary entries

  enhancement
  Feature

  cellgeni/adata-cli#4 · Filter by author iaaka opened on Feb 25, 2026