[OWKINxSCVERSE hack]: anndata-plot MVP

pyproject.toml

@@ -56,7 +56,7 @@ dependencies = [
     "tqdm",
     "scikit-learn>=1.1,<1.6",
     "statsmodels>=0.13",
-    "patsy!=1.0.0",                               # https://github.com/pydata/patsy/issues/215
+    "patsy!=1.0.0",                                                   # https://github.com/pydata/patsy/issues/215
     "networkx>=2.8",
     "natsort",
     "joblib",
@@ -65,8 +65,9 @@ dependencies = [
     "pynndescent>=0.5",
     "packaging>=21.3",
     "session-info2",
-    "legacy-api-wrap>=1.4",                       # for positional API deprecations
+    "legacy-api-wrap>=1.4",                                           # for positional API deprecations
     "typing-extensions; python_version < '3.13'",
+    "anndata-plot @ git+https://github.com/scverse/anndata-plot.git",
 ]
 dynamic = [ "version" ]
 
@@ -139,6 +140,8 @@ dev = [
     "pre-commit", # static checking
     "towncrier",  # release note management
 ]
+
+
 # Algorithms
 paga = [ "igraph" ]
 louvain = [ "igraph", "louvain>=0.6.0,!=0.6.2" ] # Louvain community detection
@@ -160,6 +163,8 @@ packages = [ "src/testing", "src/scanpy" ]
 source = "vcs"
 raw-options.version_scheme = "release-branch-semver"
 
+[tool.hatch.metadata]
+allow-direct-references = true
 [tool.pytest.ini_options]
 addopts = [
     "--import-mode=importlib",

src/scanpy/plotting/_anndata.py

@@ -17,6 +17,7 @@
 from packaging.version import Version
 from pandas.api.types import CategoricalDtype, is_numeric_dtype
 from scipy.sparse import issparse
+import holoviews as hv
 
 from .. import get
 from .. import logging as logg
@@ -759,9 +760,11 @@ def violin(
     xlabel: str = "",
     ylabel: str | Sequence[str] | None = None,
     rotation: float | None = None,
+    ncols: int = 1,
     show: bool | None = None,
     save: bool | str | None = None,
     ax: Axes | None = None,
+    interactive: bool = False,
     # deprecatd
     scale: DensityNorm | Empty = _empty,
     **kwds,
@@ -868,7 +871,10 @@ def violin(
     pl.stacked_violin
 
     """
-    import seaborn as sns  # Slow import, only import if called
+    if not interactive:
+        import seaborn as sns  # Slow import, only import if called
+    else:
+        import anndata_plot as adp
 
     sanitize_anndata(adata)
     use_raw = _check_use_raw(adata, use_raw)
@@ -913,11 +919,46 @@ def violin(
         x = groupby
         ys = keys
 
+    if ax is None:
+        axs, _, _, _ = setup_axes(
+            ax,
+            panels=["x"] if groupby is None else keys,
+            show_ticks=True,
+            right_margin=0.3,
+        )
+    else:
+        axs = [ax]
+
+    if interactive:
+        if len(ys) > 1:
+            plots = []
+            print(ys)
+            for y in ys:
+                plots.append(adp.pl.violin(
+                    data=obs_df,
+                    var_names=y,
+                    groupby=groupby,
+                    **kwds,
+                ))
+        else:
+            return adp.pl.violin(
+                data=obs_df,
+                var_names=ys[0],
+                groupby=groupby,
+                **kwds,
+            )
+
+        if ncols > 1:
+            grid = hv.Layout(plots).cols(ncols)
+            return grid
+
     if multi_panel and groupby is None and len(ys) == 1:
         # This is a quick and dirty way for adapting scales across several
         # keys if groupby is None.
         y = ys[0]
 
+
+
         g: sns.axisgrid.FacetGrid = sns.catplot(
             y=y,
             data=obs_tidy,
@@ -954,15 +995,6 @@ def violin(
         kwds.setdefault("cut", 0)
         kwds.setdefault("inner")
 
-        if ax is None:
-            axs, _, _, _ = setup_axes(
-                ax,
-                panels=["x"] if groupby is None else keys,
-                show_ticks=True,
-                right_margin=0.3,
-            )
-        else:
-            axs = [ax]
         for ax, y, ylab in zip(axs, ys, ylabel):
             ax = sns.violinplot(
                 x=x,

src/scanpy/plotting/_stacked_violin.py

@@ -3,12 +3,18 @@
 import warnings
 from typing import TYPE_CHECKING
 
+import anndata_plot as adp
+import holoviews as hv
+
+_ = adp  # so linters don't complain
 import numpy as np
 import pandas as pd
 from matplotlib import pyplot as plt
 from matplotlib.colors import is_color_like
 from packaging.version import Version
 
+import scanpy as sc
+
 from .. import logging as logg
 from .._compat import old_positionals
 from .._settings import settings
@@ -23,6 +29,9 @@
     savefig_or_show,
 )
 
+hv.extension("bokeh")
+
+
 if TYPE_CHECKING:
     from collections.abc import Mapping, Sequence
     from typing import Literal, Self
@@ -847,6 +856,19 @@ def stacked_violin(
         yticklabels=yticklabels,
         linewidth=kwds.get("linewidth", _empty),
     ).legend(title=colorbar_title)
+
+    hv.extension("matplotlib")
+
+    adata = sc.datasets.pbmc3k()
+    sc.pp.neighbors(adata)
+    sc.tl.umap(adata)
+    sc.tl.leiden(adata)
+    print(adata)
+
+    return hv.Scatter(adata, "obsm.X_umap.0", ["obsm.X_umap.1", "obs.leiden"]).opts(
+        color="obs.leiden", cmap="Category20"
+    )
+
     if return_fig:
         return vp
     vp.make_figure()