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Use deres plotting methods

enhancementNew feature or requestNew feature or request

Status: Open.

Feature

#378 In owkin/PyDESeq2;

· BorisMuzellec opened on Mar 27, 2025

Simultaneous Batch Correction and DESeq Comparisons between Cell Subsets across Batches

Status: Open.

#376 In owkin/PyDESeq2;

· Willt1128 opened on Mar 17, 2025

Add instructions on setting a reference level with formulaic

Status: Open.

#362 In owkin/PyDESeq2;

· BorisMuzellec opened on Jan 24, 2025

Plans to add DESeqDataSetFromTximport?

Status: Open.

#359 In owkin/PyDESeq2;

· annegreuBI opened on Jan 15, 2025

[BUG] lfc_shrink() generates wrong results

bugSomething isn't workingSomething isn't working

Status: Open.

#347 In owkin/PyDESeq2;

· martinPasen opened on Dec 5, 2024

[BUG] stuck on dds.deseq2()

bugSomething isn't workingSomething isn't working

Status: Open.

#338 In owkin/PyDESeq2;

· Erikado4 opened on Nov 19, 2024

Use AnnData as a component rather than a superclass of DeseqDataSet

enhancementNew feature or requestNew feature or request

Status: Open.

#331 In owkin/PyDESeq2;

· BorisMuzellec opened on Oct 31, 2024

Save / load DeseqDataSet states and write anndata to disk as h5ad

enhancementNew feature or requestNew feature or request

Status: Open.

#330 In owkin/PyDESeq2;

· BorisMuzellec opened on Oct 31, 2024

Way to pass lognormalized-regress out expression matrices

Status: Open.

#322 In owkin/PyDESeq2;

· Rafael-Silva-Oliveira opened on Oct 5, 2024

Feature Request: RLE Plots

Status: Open.

#320 In owkin/PyDESeq2;

· jonathjd opened on Sep 27, 2024

Add support for sample-/gene-dependent normalization factors (e.g., length offsets from pytximport)

enhancementNew feature or requestNew feature or request

Status: Open.

#305 In owkin/PyDESeq2;

· maltekuehl opened on Jul 31, 2024

Random effects

Status: Open.

#303 In owkin/PyDESeq2;

· TheAustinator opened on Jul 23, 2024