菜单
Fetch sequencing data from Plasmidsaurus. Use when the user asks about listing sequencing orders, downloading sequencing results, checking order status, or retrieving plasmid sequences from Plasmidsaurus.
用 Codex 或 Claude 帮你安装 复制这段 Prompt，粘贴到 Codex、Claude 或其他助手里，让它检查 Skill 页面并帮你完成安装。
基于 SOC 职业分类
Predict optimal construct boundaries for protein expression. Use when the user asks about domain boundaries, construct design, truncations, which region of a protein to express, or identifying disordered regions.
Manage lab notebook entries, registry items (plasmids, proteins, etc.), templates, widgets, and audit logs via the Labbook service. Use when creating or viewing lab notebook entries, managing the sample registry, or documenting experiments.
Verify open reading frames (ORFs) in plasmid sequences. Use when the user asks about verifying protein coding sequences, checking if an ORF is present in a plasmid, finding where a protein is encoded, or doing six-frame translation analysis.
Design PCR primers for molecular cloning. Use when the user asks about designing primers, LIC cloning primers, sequencing primers, Gibson assembly primers, or working with NCBI accession codes for cloning.
Calculate protein parameters (MW, pI, extinction coefficient) and generate purification recommendations. Use when the user asks about protein properties, molecular weight, isoelectric point, extinction coefficients, or purification strategies.
Decision trees and workflows for molecular cloning in structural biology labs. Use when the user asks about cloning strategies, LIC vs Gibson, biGBac assembly, tag selection, expression system choice (insect vs E. coli), codon optimization, or designing constructs.
| name | plasmidsaurus |
| description | Fetch sequencing data from Plasmidsaurus. Use when the user asks about listing sequencing orders, downloading sequencing results, checking order status, or retrieving plasmid sequences from Plasmidsaurus. |
| allowed-tools | Bash(plasmidsaurus_cli:*) |
Fetch sequencing data from the Plasmidsaurus API.
Requires environment variables (already configured in ~/.zshrc):
PLASMIDSAURUS_CLIENT_IDPLASMIDSAURUS_CLIENT_SECRETAlways source ~/.zshrc before running commands:
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py <command>
List all sequencing orders:
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py list
Options:
--status {complete,processing,pending}: Filter by status--no-shared: Exclude shared items--json: Output as JSONGet detailed information about a specific order:
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py info <item_code>
Options:
--json: Output as JSONDownload sequencing results and reads for a specific order:
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py download <item_code>
Options:
-o, --output DIR: Output directory (default: ./plasmidsaurus_data)-q, --quiet: Suppress progress output--keep-zip: Keep zip files after extractionDownloads are saved to <output_dir>/<item_code>/ with subdirectories:
results/: Assembled sequences, annotations, mapsreads/: Raw sequencing readsAutomatically download all new completed results:
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py auto-fetch
Options:
-o, --output DIR: Output directory (default: ./plasmidsaurus_data)--after DATE: Only download items completed after date (YYYY-MM-DD)--limit N: Max items to download per run (default: 5)-q, --quiet: Suppress progress output--keep-zip: Keep zip files after extraction# List all completed orders
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py list --status complete
# Get info for a specific order
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py info 8WGZXW
# Download results for an order
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py download 8WGZXW -o ./seq_data
# Auto-fetch results from the last month
source ~/.zshrc && python3 scripts/plasmidsaurus_cli.py auto-fetch --after 2025-01-01