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: 1mo agoDiscovered: Mar 20, 2026
Recent Claude Commits
docs: add MCP startup timeout troubleshooting for Windows users
404c9b61mo agoauthor_emailfeat: implement soft-threshold context compression (120K-170K tokens)
d3fee3e2mo agoauthor_emailfeat: change default model to gemini-3-flash-preview
75186ed2mo agoauthor_emailfeat: replace keyword detection with LLM-based MCP need analysis
93699c02mo agoauthor_emailfeat: auto-detect BioContext need and connect lazily on demand
c4c4e642mo agoauthor_emailfeat: integrate BioContext MCP server into OmicVerse Agent
978b9f62mo agoauthor_emailfeat(alignment): enhance FASTQ analysis for ovagent integration
26123cd2mo agoauthor_emailImplement Codex-inspired agent backend refactoring (P0-P3)
01a8de62mo agoauthor_emailAdd comprehensive OV Agent backend improvement plan
38b880e2mo agoauthor_emailfix(agent): Move filesystem context attributes to early initialization
76521c95mo agoauthor_emailfeat(agent): Add context instructions for non-context-aware LLMs
9cf42ff5mo agoauthor_emailfeat(agent): Add filesystem-based context management for agents
b1fbe745mo agoauthor_emailfix(tests): Update code extraction tests for new fallback behavior
0b27dc15mo agoco_authored_byfeat(agent): Comprehensive agent improvements with session-based notebook execution
bac9cb25mo agoco_authored_byChange default agent model from gpt-5 to gemini-2.5-flash
e4ffd295mo agoauthor_emailFix GPT-5 Responses API streaming implementation
b7d0efd5mo agoauthor_emailSimplify verifier module accessibility fix for Python 3.10
204554a5mo agoauthor_emailAdd __getattr__ for Python 3.10 module attribute compatibility
696f7cf5mo agoauthor_emailUse setattr and globals to ensure verifier module accessibility in Python 3.10
d26c02f5mo agoauthor_emailForce verifier module into namespace for Python 3.10 compatibility
c8da7545mo agoauthor_emailEnsure verifier module is explicitly exported in __all__ for Python 3.10
68b9cdf5mo agoauthor_emailFix remaining test path issues after reorganization
67620c95mo agoauthor_emailFix import paths in moved inspector tests for CI compatibility
eeb641f5mo agoauthor_emailFix LLM tests to skip gracefully without API keys in CI
0a281405mo agoauthor_emailReorganize test scripts into proper directory structure
30b3b295mo agoauthor_emailFix prompt length validation tests to match 200k limit
781aa7c5mo agoauthor_emailFix remaining test failures for empty code extraction
1adb9cc5mo agoauthor_emailFix test failures in CI
77d7d5b5mo agoauthor_emailRemove planning and testing documentation files
77f9ff05mo agoauthor_emailRemove testing infrastructure and diagnostic logging
3ed81e95mo agoauthor_emailAdd openai package to dependencies
a9b867c5mo agoauthor_emailAdd field-by-field diagnostic output for GPT-5 HTTP response
29af4085mo agoauthor_emailAdd detailed diagnostic output for Responses API call flow
c5758845mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 call flow debugging
994936b5mo agoauthor_emailAdd test results summary and next steps
1dc85285mo agoauthor_emailImplement robust text extraction for GPT-5 Responses API
fbce7555mo agoauthor_emailAdd aggressive debug output with print to stderr for GPT-5 diagnostics
253a6a25mo agoauthor_emailAdd comprehensive diagnostic logging for GPT-5 response structure
ccfada75mo agoauthor_emailAdd quick GPT-5 test script with debug logging
2fad28c5mo agoauthor_emailFix GPT-5 code extraction failure and test assertion bugs
86d63915mo agoauthor_emailAdd test results summary and next steps
2f7361f5mo agoauthor_emailDocument critical bug and provide fix for prompt length issue
7c7057c5mo agoauthor_emailAdd executable test script and instructions for OpenAI/Gemini
6ea65d35mo agoauthor_emailAdd comprehensive OVAgent PBMC3k testing plan
8d8b4f15mo agoauthor_emailFix hardcoded paths in inspector test files for CI compatibility
cbad22e5mo agoauthor_emailFix pytest collection errors in test files
f5d6c545mo agoauthor_emailFix import paths in registry test files after reorganization
7fefa725mo agoauthor_emailOrganize test files from PR #54 into proper directory structure
5f2c97a5mo agoauthor_emailImplement Layer 3 Phase 4: AutoPrerequisiteInserter
c3c5aca5mo agoauthor_emailImplement Layer 3 Phase 3: WorkflowEscalator
845da485mo agoauthor_email