NEWS.md

In bschilder/scKirby: Automated ingestion and conversion of various single-cell data formats.

scKirby 0.1.5

New features

• Move more functions from phenomix --> scKirby:
• compute_cor --> calc_cor
• compute_snn
• create_DimReducObject
• get_cor
• has_graph
• infer_graph_name --> infer_graph_key
• normalise
• yeojohnson
• is_installed
• dict_class
• Add "Graph" to "matrix" class.
• New exported functions:
• set_obsp
• to_delayedarray

scKirby 0.1.4

New features

• Rename get_data --> get_x to align with anndata nomenclature and avoid conflicts with piggyback-oriented functions.
• is_class
• Add new classes: "matrix_strict", "matrix_sparse", "delayed_array"
• get_x
  • Add new args layer and assay
• New funcs:
• get_obs_names
• get_var_names
• mofa_to_dimreduc
• get_obsm: can now handle MOFA models.
• get_varm: can now handle MOFA models.
• get_obs/ get_var can now take matrices.
• is_class:
• Now recognises class "matrix_list"

scKirby 0.1.3

New features

• anndata_to_ctd:
• New function to create CTD by chunking anndata obj.
• seurat_to_anndata
• Add support for anndataR method.

Bug fixes

• map_data
• Change default: as_sparse=TRUE

scKirby 0.1.2

New features

• Move scNLP::seurat_pipeline --> scKirby::process_seurat
• New subfunction calc_specificity

scKirby 0.1.1

• Implemented rworkflows
• Added a NEWS.md file to track changes to the package.

bschilder/scKirby documentation built on Oct. 2, 2024, 10:16 p.m.