Starlitnightly/omicverse
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
bioinformaticsbulk-rna-seqomicssingle-cell
First Claude commit: Nov 2, 2025Last Claude commit: 4mo agoDiscovered: Mar 20, 2026
Recent Claude Commits
docs: add MCP startup timeout troubleshooting for Windows users
404c9b64mo agoauthor_emailfeat: implement soft-threshold context compression (120K-170K tokens)
d3fee3e5mo agoauthor_emailfeat: change default model to gemini-3-flash-preview
75186ed5mo agoauthor_emailfeat: replace keyword detection with LLM-based MCP need analysis
93699c05mo agoauthor_emailfeat: auto-detect BioContext need and connect lazily on demand
c4c4e645mo agoauthor_emailfeat: integrate BioContext MCP server into OmicVerse Agent
978b9f65mo agoauthor_emailfeat(alignment): enhance FASTQ analysis for ovagent integration
26123cd5mo agoauthor_emailImplement Codex-inspired agent backend refactoring (P0-P3)
01a8de65mo agoauthor_emailAdd comprehensive OV Agent backend improvement plan
38b880e5mo agoauthor_emailfix(agent): Move filesystem context attributes to early initialization
76521c98mo agoauthor_emailfeat(agent): Add context instructions for non-context-aware LLMs
9cf42ff8mo agoauthor_emailfeat(agent): Add filesystem-based context management for agents
b1fbe748mo agoauthor_emailfix(tests): Update code extraction tests for new fallback behavior
0b27dc18mo agoco_authored_byfeat(agent): Comprehensive agent improvements with session-based notebook execution
bac9cb28mo agoco_authored_byChange default agent model from gpt-5 to gemini-2.5-flash
e4ffd298mo agoauthor_emailFix GPT-5 Responses API streaming implementation
b7d0efd8mo agoauthor_emailSimplify verifier module accessibility fix for Python 3.10
204554a8mo agoauthor_emailAdd __getattr__ for Python 3.10 module attribute compatibility
696f7cf8mo agoauthor_emailUse setattr and globals to ensure verifier module accessibility in Python 3.10
d26c02f8mo agoauthor_emailForce verifier module into namespace for Python 3.10 compatibility
c8da7548mo agoauthor_emailEnsure verifier module is explicitly exported in __all__ for Python 3.10
68b9cdf8mo agoauthor_emailFix remaining test path issues after reorganization
67620c98mo agoauthor_emailFix import paths in moved inspector tests for CI compatibility
eeb641f8mo agoauthor_emailFix LLM tests to skip gracefully without API keys in CI
0a281408mo agoauthor_emailReorganize test scripts into proper directory structure
30b3b298mo agoauthor_emailFix prompt length validation tests to match 200k limit
781aa7c8mo agoauthor_emailFix remaining test failures for empty code extraction
1adb9cc8mo agoauthor_emailFix test failures in CI
77d7d5b8mo agoauthor_emailRemove planning and testing documentation files
77f9ff08mo agoauthor_emailRemove testing infrastructure and diagnostic logging
3ed81e98mo agoauthor_emailAdd openai package to dependencies
a9b867c8mo agoauthor_emailAdd field-by-field diagnostic output for GPT-5 HTTP response
29af4088mo agoauthor_emailAdd detailed diagnostic output for Responses API call flow
c5758848mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 call flow debugging
994936b8mo agoauthor_emailAdd test results summary and next steps
1dc85288mo agoauthor_emailImplement robust text extraction for GPT-5 Responses API
fbce7558mo agoauthor_emailAdd aggressive debug output with print to stderr for GPT-5 diagnostics
253a6a28mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 response structure
ccfada78mo agoauthor_emailAdd quick GPT-5 test script with debug logging
2fad28c8mo agoauthor_emailFix GPT-5 code extraction failure and test assertion bugs
86d63918mo agoauthor_emailAdd test results summary and next steps
2f7361f8mo agoauthor_emailDocument critical bug and provide fix for prompt length issue
7c7057c8mo agoauthor_emailAdd executable test script and instructions for OpenAI/Gemini
6ea65d38mo agoauthor_emailAdd comprehensive OVAgent PBMC3k testing plan
8d8b4f18mo agoauthor_emailFix hardcoded paths in inspector test files for CI compatibility
cbad22e8mo agoauthor_emailFix pytest collection errors in test files
f5d6c548mo agoauthor_emailFix import paths in registry test files after reorganization
7fefa728mo agoauthor_emailOrganize test files from PR #54 into proper directory structure
5f2c97a8mo agoauthor_emailImplement Layer 3 Phase 4: AutoPrerequisiteInserter
c3c5aca8mo agoauthor_emailImplement Layer 3 Phase 3: WorkflowEscalator
845da488mo agoauthor_email