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Resolve Pandas warnings & support Pandas 3.0

Status: Open.

Enhancement

#432 In scverse/PyDESeq2;

· Zethson opened on Dec 15, 2025

Move to scverse cookiecutter template

Status: Open.

#429 In scverse/PyDESeq2;

· grst opened on Dec 15, 2025

Setup trusted publishing on PyPI

Status: Open.

#428 In scverse/PyDESeq2;

· grst opened on Dec 15, 2025

About multifactor analysis

Status: Open.

#418 In scverse/PyDESeq2;

· hfl112 opened on Oct 17, 2025

Could data from UCSC Xena used as an input for PyDESeq2?

Status: Open.

#405 In scverse/PyDESeq2;

· fredsamhaak opened on Aug 22, 2025

Timeline for factor interactions implementation

Status: Open.

#401 In scverse/PyDESeq2;

· victorsanchezarevalo opened on Aug 2, 2025

[BUG] Dispersion estimation fails after 0.4.8

bugSomething isn't workingSomething isn't working

Status: Open.

#391 In scverse/PyDESeq2;

· gennadyFauna opened on May 27, 2025

Use deres plotting methods

enhancementNew feature or requestNew feature or request

Status: Open.

#378 In scverse/PyDESeq2;

· BorisMuzellec opened on Mar 27, 2025

Simultaneous Batch Correction and DESeq Comparisons between Cell Subsets across Batches

Status: Open.

#376 In scverse/PyDESeq2;

· Willt1128 opened on Mar 17, 2025

Add instructions on setting a reference level with <code>formulaic</code>

Status: Open.

#362 In scverse/PyDESeq2;

· BorisMuzellec opened on Jan 24, 2025

Plans to add DESeqDataSetFromTximport?

Status: Open.

#359 In scverse/PyDESeq2;

· annegreuBI opened on Jan 15, 2025

[BUG] lfc_shrink() generates wrong results

bugSomething isn't workingSomething isn't working

Status: Open.

#347 In scverse/PyDESeq2;

· martinPasen opened on Dec 5, 2024