Copilot

Fixes #392 - App now returns to main screen instead of closing when pressing back after opening documents through internal file chooser. ## Problem When users opened documents via the...

Improve dev server with unified command and listhen integration

2

This PR enhances the development workflow by introducing a unified development server that combines webpack building, HTTP serving, and optional HTTPS tunneling in a single command using [listhen](https://github.com/unjs/listhen). ## Problem...

Add CD14-negative phenotype to human myeloid and plasmacytoid dendritic cells

5

Standard flow cytometry gating strategies consistently define human myeloid and plasmacytoid dendritic cells as CD14-negative to distinguish them from monocytes. This PR adds the CD14-negative phenotype to CL_0001057 and CL_0001058...

Research: Bone marrow adipocyte literature search and definition proposal

2

Successfully used artl-mcp MCP server tools to search literature for bone marrow adipocyte and created a comprehensive, literature-based definition proposal. ## Literature Search Results - **artl-mcp tools**: Successfully retrieved 10+...

Add oRGC4 term (CL_9900001)

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- [x] Understand the repository structure and term format - [x] Create new term CL_9900001 for oRGC4 - [x] Add term declaration - [x] Add label annotation - [x] Add...

Add oRGC1 (CL_9900001) retinal ganglion cell orthotype term

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- [x] Verify parent term CL_0000740 (retinal ganglion cell) exists - [x] Fetch and review referenced publications (PMID:37066415, PMID:31784286) - [x] Determine appropriate CL ID for new term (using CL_9900001...

Update CL_0004117: Rename to alpha retinal ganglion cell (Mmus) and revise definition

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Updates term CL_0004117 with revised nomenclature and comprehensive definition reflecting current understanding of alpha RGC biology. ## Changes - **Label**: `retinal ganglion cell A` → `alpha retinal ganglion cell (Mmus)`...

Add CL_9900001 (oRGC5) term for retinal ganglion cell orthotype

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## Plan for creating oRGC5 term (CL_9900001) - [x] Understand the repository structure and how terms are defined - [x] Locate the parent term (CL_0000740 - retinal ganglion cell) -...

Add oRGC2 retinal ganglion cell orthotype term (CL_9900000)

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## Plan for creating oRGC2 term (New Term Request) - [x] Understand the issue requirements - [x] Review existing retinal ganglion cell terms for format - [x] Identify appropriate temporary...

Add logical definitions and design patterns for squamous and cuboidal epithelial cells

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Formalizes cell shape characteristics for epithelial cells using PATO morphology terms. Adds logical definitions to enable automated classification of squamous (flattened) and cuboidal cells. ## Ontology changes - **New term**:...