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How can I build the <code>scenicplus_development_tutorial</code> conda envirement?

Status: Open.

#619 In aertslab/scenicplus;

· danli349 opened on Dec 17, 2025

Running scenicplus without internet connection

Status: Open.

#618 In aertslab/scenicplus;

· malonzm1 opened on Dec 17, 2025

<code>pycistopic</code> UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools&lt;81.

Status: Open.

#617 In aertslab/scenicplus;

· danli349 opened on Dec 16, 2025

heatmap_dotplot / generate_dotplot_df misalign cell annotations when mod.to_df() returns rows in a different order (groupby uses wrong labels)

Status: Open.

#614 In aertslab/scenicplus;

· kahoitoh opened on Dec 9, 2025

MissingOutputException in rule download_genome_annotations

Status: Open.

#611 In aertslab/scenicplus;

· biocclh opened on Nov 17, 2025

Converting Seurat + Signac scATAC Object for SCENIC+

Status: Open.

#610 In aertslab/scenicplus;

· Namratha-shivani opened on Nov 6, 2025

The heatmap/dotplot filtering threshold

Status: Open.

#608 In aertslab/scenicplus;

· aalizadetst opened on Oct 12, 2025

Perturbation simulation step: where 'MMline' tag come from

Status: Open.

#607 In aertslab/scenicplus;

· Nickluas opened on Sep 29, 2025

polars.exceptions.ColumnNotFoundError: unable to find column "CB"

Status: Open.

#605 In aertslab/scenicplus;

· niconps14 opened on Sep 11, 2025

Dockerfile does not build

Status: Open.

#604 In aertslab/scenicplus;

· AnjaliS1 opened on Sep 9, 2025

DEM output file generation time out

Status: Open.

#603 In aertslab/scenicplus;

· LiChengxi666 opened on Sep 3, 2025

Suggestions for SCENIC+ for scRNA Seq data only

Status: Open.

#602 In aertslab/scenicplus;

· Upadhyay-pr opened on Aug 26, 2025