zmap-tools 0.1.0__py3-none-any.whl

zmap/__init__.py

@@ -0,0 +1,36 @@
+from __future__ import annotations
+
+"""
+zmap-tools — Python API for the Zebrafish Multi-Atlas Project (ZMAP).
+
+A curated single-cell RNA-seq reference atlas for zebrafish development,
+with tools for reference loading, label transfer, and visualization.
+
+Submodules
+----------
+reference (aliased as ref)
+    Download, cache, and load ZMAP reference H5ADs and consensus markers.
+predict
+    kNN-based label transfer from the ZMAP reference to query datasets.
+dotplot
+    Publication-ready dotplot visualization of gene expression patterns.
+"""
+
+from importlib.metadata import PackageNotFoundError, version as _version
+
+# Package version (from the PyPI/dist name)
+try:
+    __version__ = _version("zmap-tools")
+except PackageNotFoundError:
+    __version__ = "0.0.0"
+
+# Import subpackages as attributes 
+from . import reference    # zmap.reference
+from . import dotplot      # zmap.dotplot
+from . import predict      # zmap.predict
+
+# Scanpy-style aliases: 
+ref = reference
+
+
+__all__ = ["__version__", "ref", "dotplot", "predict"]

zmap/dotplot/__init__.py

@@ -0,0 +1,26 @@
+from __future__ import annotations
+
+"""
+Dotplot visualization for ZMAP reference data.
+
+Provides gene-centric dotplots (expression across cell types × timepoints
+and studies) and group-centric dotplots (marker genes for a focal cell type
+compared to its siblings and tissues).
+
+Convenience aliases:
+
+- ``gene_view`` → :func:`gene_groups_vs_time_and_studies`
+- ``group_view`` → :func:`group_siblings_vs_markers`
+"""
+
+from .dotplot_gene import gene_groups_vs_time_and_studies 
+from .dotplot_group import group_siblings_vs_markers, group_descendants_vs_markers
+
+gene_view = gene_groups_vs_time_and_studies
+group_view = group_siblings_vs_markers
+
+__all__ = ["gene_groups_vs_time_and_studies",
+		   "group_siblings_vs_markers",
+		   "group_descendants_vs_markers",
+		   "gene_view",
+		   "group_view"]