computational-biology-project-manager

Computational Biology Project Manager

Manage structure and continuity while leaving scientific intent with the researcher. Reuse the chosen project root, existing conventions, and established authorization. A resume request does not authorize reorganizing the project.

Select the work

• Initialize: inspect first; create only missing agreed directories and management documents. Merge useful existing notes rather than replacing them.
• Resume: read the index, recap, and relevant artifacts. Distinguish current observations, unverified prior claims, unresolved decisions, and next work.
• Maintain or hand off: update stable navigation when facts change; record substantive outcomes, actual checks, limitations, and next authorized actions.
• Distill a local skill: only when requested or already authorized; capture a demonstrated reusable workflow using local-skills.md.

Workspace and records

For a new project without another convention, use:

data/               Inputs; preserve raw data
scripts/            Analysis and utility code
outputs/            Generated artifacts
log/                Execution records
project_index.md    Stable overview and navigation
last_recap.md       Latest current-state handoff

Do not move existing data or impose this layout over a conflicting convention. Report a path/type collision before dependent writes. Do not populate empty directories with speculative data, code, results, or dependency files.

Use project-documents.md when creating or merging the index or recap. Its default is English project documentation and a Chinese last_recap.md; follow explicit user or established project language choices instead when they differ. Use relative links and label unknowns TBD. Keep the index for stable facts and long traces in the established log location.

For a temporary conversation transfer, use the separate handoff skill when available and requested. Its full-session context need not enter the repository. Do not install companions merely because project management was requested.