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Content: rebuild every local snippet index after the #23 embedding fix

Status: Open.

#30 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 25, 2026

Review and safe deprecation of the programmatic, agent-calling workflow in src/

Status: Open.

#25 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 25, 2026

Local snippet index: MiniLM truncates at 256 tokens, so half of every chunk is never embedded

Status: Open.

#23 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 25, 2026

ASTA index-depth probe: _probe_asta false-positives on unindexed papers

bugSomething isn't workingSomething isn't working

enhancementNew feature or requestNew feature or request

Status: Open.

#22 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 21, 2026

Setup skill: fetch-supplements (PMC API → disk) + probe/index cell-type content

Status: Open.

#21 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 18, 2026

High-quality PDF reference extraction (outbound edges + in-text anchors)

enhancementNew feature or requestNew feature or request

Status: Open.

#13 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Aug 13, 2026

[Epic] Atlas-reporter pilot projects from HuBMAP CT term requests

Status: Open.

#11 In Cellular-Semantics/Atlas-reporter;

· cellsemantic opened on Jul 28, 2026

Update README.md ingest instructions

Status: Open.

#10 In Cellular-Semantics/Atlas-reporter;

· dosumis opened on Jun 17, 2026

Better document and standardise annotation ingest

Status: Open.

#9 In Cellular-Semantics/Atlas-reporter;

· dosumis opened on Jun 17, 2026

Run HRA atlas - knee chondrocytes

Status: Open.

#2 In Cellular-Semantics/Atlas-reporter;

· dosumis opened on Apr 27, 2026