autocourse 1.0.1

CLI toolkit for organizing AI/computational biology workshops

autocourse

A Claude Code plugin for organizing AI/computational biology workshops. Config-driven, ships with skills, templates, themes, and sample datasets.

Installation

Option A: pip package (standalone CLI)

pip install autocourse                    # core (yaml only)
pip install autocourse[google]            # + Google API support (email, forms, drive)
pip install autocourse[all]               # everything

Then use autocourse or acos from any directory:

autocourse --help
autocourse send --template invite --from-tsv participants.tsv --dry-run
acos slides --theme ocean
acos datasets --list

Option B: Claude Code plugin

claude install-plugin github:sahuno/autocourse

Install external tools

npm install -g @marp-team/marp-cli  # for slide building

Or run the full setup script:

bash setup/install.sh

Quick Start

1. Scaffold a new workshop

/workshop-init

Runs an interactive interview, generates workshop.config.yaml, creates the directory tree, and initializes git.

2. Send participant emails

/workshop-comms

Select a template (invite, checklist, or kickoff), load recipients from a TSV file, preview, and send via Gmail API.

# CLI usage
python scripts/send_email.py --config workshop.config.yaml --template invite --from-tsv participants/responses.tsv --dry-run

3. Build slide decks

/workshop-slides

Converts slide framework markdown files to themed HTML and PDF using Marp.

# CLI usage
./scripts/build_slides.sh --config workshop.config.yaml

CLI Commands

Command	Description
autocourse init	Scaffold a new workshop (interactive via Claude Code)
autocourse send	Send templated emails via Gmail API
autocourse slides	Build Marp slide decks
autocourse form	Create pre-workshop survey (Google Forms)
autocourse drive	Create Google Drive folder structure
autocourse datasets	Generate sample datasets for exercises

Both autocourse and acos work as the command name.

Skills (Claude Code)

Skill	Description
/workshop-init	Scaffold a new workshop project with config and directory tree
/workshop-comms	Send templated emails to participants via Gmail API
/workshop-slides	Build Marp slide decks from markdown frameworks with themed CSS
/workshop-curriculum	Generate agenda + slide frameworks from config topics (parallel subagents)
/workshop-repo	Create and configure a GitHub repository from config
/workshop-marketing	Generate flyers, social media posts, and email campaigns
/workshop-logistics	Set up Google Forms survey, Drive folders, Calendar invites
/workshop-dayof	Day-of checklist, kickoff email, last-minute prep
/workshop-postmortem	Post-workshop follow-up, feedback survey, summary report

Configuration

All workshop details live in workshop.config.yaml:

workshop:
  name: "Agentic AI for Computational Biology"
  date: "2026-04-10"
  venue: "Your Venue"
  # ... see workshop.config.yaml for all fields

slides:
  theme: "ocean"  # ocean | savanna | midnight

email:
  sender: "[e-mail]"
  credentials_dir: "./credentials"

Themes

Three Marp CSS themes included:

Theme	Style	Use Case
ocean	White, deep blue headers	Professional, institutional
savanna	Warm white, earthy gold	Community workshops
midnight	Dark, cyan accents	Tech-forward, hackathons

Email Templates

Templates in templates/ use {placeholder} syntax:

• email_invite.md — Workshop invitation
• email_checklist.md — Pre-workshop setup checklist
• email_kickoff.md — Day-of kickoff with Zoom link

Sample Datasets

Small files in datasets/ for workshop exercises:

• sample_sequences.fasta — BRCA1, TP53, EGFR, MYC partial sequences
• sample_annotations.gff3 — Gene annotations (GRCh38)
• sample_gene_list.txt — Simulated DEG list with log2FC and p-values

Project Structure

workshop-kit/
├── .claude-plugin              # Plugin manifest
├── workshop.config.yaml        # Workshop configuration
├── skills/
│   ├── workshop-init/          # /workshop-init skill
│   ├── workshop-comms/         # /workshop-comms skill
│   └── workshop-slides/        # /workshop-slides skill
├── templates/                  # Email and slide templates
├── themes/                     # Marp CSS themes
├── scripts/                    # send_email.py, build_slides.sh
├── datasets/                   # Sample data for exercises
├── references/                 # Setup guides and cheatsheets
└── setup/                      # install.sh, requirements.txt

Prerequisites

• Python 3.9+
• Node.js 18+ (for Marp CLI)
• Git
• Google OAuth credentials (for email sending — see references/google_api_setup.md)

License

MIT

Author

Samuel Ahuno ([e-mail]) | GitHub: sahuno