omicverse 1.6.3

v1.6.3

on Python PyPI

• Added ov.setting.cpu_init to change the environment to CPU.
• Move module tape,SEACells and palantir to externel

Single Module

• Added CytoTrace2 to predict cellular potency categories and absolute developmental potential from single-cell RNA-sequencing data.
• Added cpdb_exact_target and cpdb_exact_source to exact the means of special ligand/receptor
• Added gptcelltype_local to identify the celltype using local LLM #96 #99

Bulk Module

• Added MaxBaseMean columns in dds.result to help people ignore the empty samples.

Space Module

• Added **kwargs in STT.compute_pathway
• Added GraphST to identify the spatial domain

pl Module

• Added cpdb_network, cpdb_chord, cpdb_heatmap, cpdb_interacting_network,cpdb_interacting_heatmap and cpdb_group_heatmap to visualize the result of CellPhoneDB

utils Module

• Added mclust_py to identify the Gaussian Mixture cluster
• Added mclust methdo in cluster function

What's Changed

• Add a function of cell types annotation with local LLMs by @fredsamhaak in #96
• Add guidance on using local LLMs for cell types annotation by @fredsamhaak in #99

New Contributors

• @fredsamhaak made their first contribution in #96

Full Changelog: v1.6.2...v1.6.3