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'anndata.read' is deprecated: read_dataset does not run on latest versions of Anndata

Status: Open.

#111 In broadinstitute/wot;

· batalha23 opened on Jan 27, 2026

A question about the 2019 Cell paper (~40% iPSC trajectory)

Status: Open.

#110 In broadinstitute/wot;

· grisip opened on Jan 4, 2026

Calculating minimum transport distance between cells without time information

Status: Open.

#107 In broadinstitute/wot;

· Hilarialy opened on Apr 26, 2024

Error in visualizing trajectory

Status: Open.

#106 In broadinstitute/wot;

· hanjun98 opened on Nov 17, 2023

Some questions about normalization

Status: Open.

#104 In broadinstitute/wot;

· 809825706 opened on Nov 22, 2022

Overflow encountered in duality gap computation, please report this incident

Status: Open.

#103 In broadinstitute/wot;

· davhum opened on Sep 20, 2022

Are all genes or highly variable genes used as input expression matrix in Waddington-OT?

Status: Open.

#100 In broadinstitute/wot;

· Mingsenli opened on Jun 15, 2022

How to adjust raw data to this format

Status: Open.

#99 In broadinstitute/wot;

· tar-art opened on Feb 5, 2022

Can't replicate data preprocessing

Status: Open.

#98 In broadinstitute/wot;

· morphy380 opened on Jan 25, 2022

pg.neighbors(adata_var) error

Status: Open.

#97 In broadinstitute/wot;

· noobugs opened on Dec 20, 2021

cell_growth_rates not passed on command line

Status: Open.

#96 In broadinstitute/wot;

· MikeDMorgan opened on Sep 14, 2021

<code>wot.ot.OTModel</code> does not fail with random arguments

Status: Open.

#94 In broadinstitute/wot;

· WeilerP opened on Aug 30, 2021