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scGPT integration-based label transfer

Status: Open.

#981 In openpipelines-bio/openpipeline;

· dorien-er opened on Mar 14, 2025

Ingestion changes

enhancementNew feature or requestNew feature or request

Status: Open.

#965 In openpipelines-bio/openpipeline;

· rcannood opened on Feb 6, 2025

Create mudata namespace an move components that perform basic operation on the mudata objec to it (delete_layer, remove_modality). Most of these currently are put in the metadata or filter namespace.

Status: Open.

#770 In openpipelines-bio/openpipeline;

· DriesSchaumont opened on Mar 26, 2024

TODO list for the paper

Status: Open.

#738 In openpipelines-bio/openpipeline;

· VladimirShitov opened on Mar 8, 2024

Update scarches component

Status: Open.

#709 In openpipelines-bio/openpipeline;

· VladimirShitov opened on Feb 15, 2024

FEATURE: Add functionality to exlcude some features from the analysis.

Status: Open.

#696 In openpipelines-bio/openpipeline;

· DriesSchaumont opened on Feb 7, 2024

Add more per-component logging

Status: Open.

#649 In openpipelines-bio/openpipeline;

· DriesSchaumont opened on Jan 12, 2024

Capitalized modality names are not processed by full pipeline workflow

enhancementNew feature or requestNew feature or request

Status: Open.

#626 In openpipelines-bio/openpipeline;

· KaiWaldrant opened on Dec 5, 2023

Multi sample test files for ATAC components

Status: Open.

#625 In openpipelines-bio/openpipeline;

· VladimirShitov opened on Nov 28, 2023

Remove big binary files

Status: Open.

#622 In openpipelines-bio/openpipeline;

· rcannood opened on Nov 24, 2023

cellbender output saved in additional layer

enhancementNew feature or requestNew feature or request

Status: Open.

#618 In openpipelines-bio/openpipeline;

· magochab opened on Nov 16, 2023

Report the number/percentage of HVGs present in 2 modalities

Status: Open.

#608 In openpipelines-bio/openpipeline;

· VladimirShitov opened on Oct 31, 2023