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: 2mo agoDiscovered: Mar 20, 2026
Recent Claude Commits
docs: add MCP startup timeout troubleshooting for Windows users
404c9b62mo agoauthor_emailfeat: implement soft-threshold context compression (120K-170K tokens)
d3fee3e3mo agoauthor_emailfeat: change default model to gemini-3-flash-preview
75186ed3mo agoauthor_emailfeat: replace keyword detection with LLM-based MCP need analysis
93699c03mo agoauthor_emailfeat: auto-detect BioContext need and connect lazily on demand
c4c4e643mo agoauthor_emailfeat: integrate BioContext MCP server into OmicVerse Agent
978b9f63mo agoauthor_emailfeat(alignment): enhance FASTQ analysis for ovagent integration
26123cd3mo agoauthor_emailImplement Codex-inspired agent backend refactoring (P0-P3)
01a8de64mo agoauthor_emailAdd comprehensive OV Agent backend improvement plan
38b880e4mo agoauthor_emailfix(agent): Move filesystem context attributes to early initialization
76521c96mo agoauthor_emailfeat(agent): Add context instructions for non-context-aware LLMs
9cf42ff6mo agoauthor_emailfeat(agent): Add filesystem-based context management for agents
b1fbe746mo agoauthor_emailfix(tests): Update code extraction tests for new fallback behavior
0b27dc16mo agoco_authored_byfeat(agent): Comprehensive agent improvements with session-based notebook execution
bac9cb26mo agoco_authored_byChange default agent model from gpt-5 to gemini-2.5-flash
e4ffd296mo agoauthor_emailFix GPT-5 Responses API streaming implementation
b7d0efd6mo agoauthor_emailSimplify verifier module accessibility fix for Python 3.10
204554a7mo agoauthor_emailAdd __getattr__ for Python 3.10 module attribute compatibility
696f7cf7mo agoauthor_emailUse setattr and globals to ensure verifier module accessibility in Python 3.10
d26c02f7mo agoauthor_emailForce verifier module into namespace for Python 3.10 compatibility
c8da7547mo agoauthor_emailEnsure verifier module is explicitly exported in __all__ for Python 3.10
68b9cdf7mo agoauthor_emailFix remaining test path issues after reorganization
67620c97mo agoauthor_emailFix import paths in moved inspector tests for CI compatibility
eeb641f7mo agoauthor_emailFix LLM tests to skip gracefully without API keys in CI
0a281407mo agoauthor_emailReorganize test scripts into proper directory structure
30b3b297mo agoauthor_emailFix prompt length validation tests to match 200k limit
781aa7c7mo agoauthor_emailFix remaining test failures for empty code extraction
1adb9cc7mo agoauthor_emailFix test failures in CI
77d7d5b7mo agoauthor_emailRemove planning and testing documentation files
77f9ff07mo agoauthor_emailRemove testing infrastructure and diagnostic logging
3ed81e97mo agoauthor_emailAdd openai package to dependencies
a9b867c7mo agoauthor_emailAdd field-by-field diagnostic output for GPT-5 HTTP response
29af4087mo agoauthor_emailAdd detailed diagnostic output for Responses API call flow
c5758847mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 call flow debugging
994936b7mo agoauthor_emailAdd test results summary and next steps
1dc85287mo agoauthor_emailImplement robust text extraction for GPT-5 Responses API
fbce7557mo agoauthor_emailAdd aggressive debug output with print to stderr for GPT-5 diagnostics
253a6a27mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 response structure
ccfada77mo agoauthor_emailAdd quick GPT-5 test script with debug logging
2fad28c7mo agoauthor_emailFix GPT-5 code extraction failure and test assertion bugs
86d63917mo agoauthor_emailAdd test results summary and next steps
2f7361f7mo agoauthor_emailDocument critical bug and provide fix for prompt length issue
7c7057c7mo agoauthor_emailAdd executable test script and instructions for OpenAI/Gemini
6ea65d37mo agoauthor_emailAdd comprehensive OVAgent PBMC3k testing plan
8d8b4f17mo agoauthor_emailFix hardcoded paths in inspector test files for CI compatibility
cbad22e7mo agoauthor_emailFix pytest collection errors in test files
f5d6c547mo agoauthor_emailFix import paths in registry test files after reorganization
7fefa727mo agoauthor_emailOrganize test files from PR #54 into proper directory structure
5f2c97a7mo agoauthor_emailImplement Layer 3 Phase 4: AutoPrerequisiteInserter
c3c5aca7mo agoauthor_emailImplement Layer 3 Phase 3: WorkflowEscalator
845da487mo agoauthor_email