benchos-snapgene

name	benchos-snapgene
description	Parse SnapGene .dna files from the BenchOS workspace, inspect SeqViz payloads for registry attachments, and compute encoded proteins for plasmid registry items. Use when the user asks to read SnapGene files, inspect plasmid maps, or extract protein/primer information from a .dna file.
license	Proprietary
compatibility	Requires BenchOS agent runtime with `labbook_cli`, `benchos-cli`, and existing registry attachment access.
metadata	{"author":"benchos","version":"1"}
allowed-tools	labbook_cli

BenchOS SnapGene

Use this skill when the user provides a .dna file or points to a plasmid registry attachment and wants SnapGene-derived information.

Quick Rules

• Prefer workspace .dna paths or existing registry attachments.
• For workspace files, use benchos-cli snapgene parse-workspace.
• For registry plasmid maps, use the dedicated SeqViz endpoint through benchos-cli snapgene seqviz.
• If the user wants encoded proteins persisted onto a registry plasmid, use benchos-cli snapgene compute-proteins.

Command Patterns

Parse a workspace SnapGene file

{"args":["snapgene","parse-workspace","--path",".chat-context/construct.dna"]}

Load SeqViz payload from a registry attachment

{"args":["snapgene","seqviz","--registry-id","157","--attachment-id","912"]}

Compute encoded proteins for a plasmid registry item

{"args":["snapgene","compute-proteins","--registry-id","157","--attachment-id","912","--overwrite","true","--include-backbone","false"]}