ExamplesWorkflows

Workflow Examples

End-to-end workflows that combine templates, databases, and automations into complete productivity systems. Each workflow includes step-by-step processes, template usage, and automation tips.

Overview

Each workflow example includes:

  • Complete process description
  • Required templates and databases
  • Step-by-step instructions
  • Automation configurations
  • Customization options
  • Common variations

Morning Routine Workflow

Use Case: Start each day with intention, review tasks, and plan priorities

Time Required: 10-15 minutes

Difficulty: Beginner

Overview

A structured morning routine that combines daily notes, task review, and calendar checking to set up a productive day.

Required Setup

Templates

# templates/daily-note-template.md
---
title: "{{date:YYYY-MM-DD}} - Daily Note"
type: daily-note
date: "{{date:YYYY-MM-DD}}"
day: "{{date:dddd}}"
week: "{{date:ww}}"
tags: [daily-note, "{{date:YYYY}}", "{{date:MMMM}}"]
weather: ""
mood: ""
energy: ""
---
 
# {{date:dddd, MMMM D, YYYY}}
 
## Morning Reflection
 
**How do I feel?**
 
**What am I grateful for?**
1.
2.
3.
 
**What would make today great?**
1.
2.
3.
 
---
 
## Today's Focus
 
### Top 3 Priorities
1. [ ]
2. [ ]
3. [ ]
 
### Must Do Today
- [ ]
 
### Should Do (if time permits)
- [ ]
 
### Could Do (nice to have)
- [ ]
 
---
 
## Schedule
 
### Morning (6am - 12pm)
- [[meeting-link|Meeting title]] at TIME
 
### Afternoon (12pm - 6pm)
-
 
### Evening (6pm - 12am)
-
 
---
 
## Notes & Ideas
 
### Work
 
### Personal
 
### Learning
 
---
 
## Time Tracking
 
| Activity | Duration | Notes |
|----------|----------|-------|
|          |          |       |
 
**Total Productive Time**: ___ hours
 
---
 
## Evening Reflection
 
**What went well?**
 
**What could be improved?**
 
**Lessons learned:**
 
**Tomorrow's prep:**
- [ ]
 
---
 
## Links
- [[{{date-1d:YYYY-MM-DD}}|Yesterday]]
- [[{{date+1d:YYYY-MM-DD}}|Tomorrow]]
- [[{{date:YYYY-WW}}|This Week]]

Databases

# databases/tasks.yaml
name: Tasks
fields:
  - name: Task
    type: text
    required: true
  - name: Status
    type: select
    options: [Inbox, Today, This Week, Next Week, Someday, Done]
  - name: Priority
    type: select
    options: [P1-Critical, P2-High, P3-Medium, P4-Low]
  - name: Energy
    type: select
    options: [High Energy, Medium Energy, Low Energy]
  - name: Duration
    type: select
    options: [5min, 15min, 30min, 1hr, 2hr, 4hr+]
  - name: Due Date
    type: date
  - name: Project
    type: relation
    related_base: Projects
  - name: Tags
    type: multi_select

Step-by-Step Process

Step 1: Create Daily Note (Auto-Generated)

# automation/create-daily-note.yaml
trigger:
  type: scheduled
  time: "06:00"
  days: [Mon, Tue, Wed, Thu, Fri, Sat, Sun]
 
actions:
  - create_note:
      template: daily-note-template
      folder: 05-daily/{{date:YYYY}}/{{date:MM-MMMM}}
      filename: "{{date:YYYY-MM-DD}}.md"
 
  - open_note:
      path: "{{daily_note.path}}"
 
  - notify:
      title: "Good morning!"
      message: "Your daily note is ready"

Step 2: Review Yesterday (Manual)

Open yesterday’s note and:

  1. Complete evening reflection if not done
  2. Move incomplete tasks to today
  3. Note any follow-ups
// Plugin: Review Yesterday
async function reviewYesterday() {
  const yesterday = moment().subtract(1, 'day').format('YYYY-MM-DD');
  const yesterdayNote = await lokud.notes.get(`05-daily/${yesterday}.md`);
 
  if (!yesterdayNote) return;
 
  // Extract incomplete tasks
  const incompleteTasks = yesterdayNote.content
    .match(/- \[ \] .+/g) || [];
 
  // Add to today's note
  if (incompleteTasks.length > 0) {
    const today = await lokud.notes.getDaily();
    await today.append('\n## Carried Over from Yesterday\n');
    await today.append(incompleteTasks.join('\n'));
  }
 
  // Show summary
  lokud.ui.notify({
    title: 'Yesterday Review',
    message: `${incompleteTasks.length} tasks carried over`
  });
}

Step 3: Review Tasks Database (Auto-Generated)

# automation/morning-task-review.yaml
trigger:
  type: note_opened
  conditions:
    - type: daily-note
 
actions:
  # Query overdue tasks
  - query_database:
      base: Tasks
      filters:
        - field: Due Date
          operator: before
          value: "{{date:today}}"
        - field: Status
          operator: not_equals
          value: Done
      insert_at: "## Overdue Tasks"
      format: task_list
 
  # Query today's tasks
  - query_database:
      base: Tasks
      filters:
        - field: Status
          operator: equals
          value: Today
        - field: Status
          operator: not_equals
          value: Done
      sort:
        - field: Priority
          direction: asc
      insert_at: "## Tasks for Today"
      format: task_list
      group_by: Priority
 
  # Query this week's tasks
  - query_database:
      base: Tasks
      filters:
        - field: Due Date
          operator: between
          value: ["{{date:today}}", "{{date:week_end}}"]
        - field: Status
          operator: not_equals
          value: Done
      insert_at: "## Tasks This Week"
      format: compact_list

Step 4: Check Calendar (Auto-Generated)

# automation/morning-calendar.yaml
trigger:
  type: note_opened
  conditions:
    - type: daily-note
 
actions:
  # Import calendar events
  - calendar_sync:
      date: "{{date:today}}"
      insert_at: "## Schedule"
      format: |
        - {{time}} - [[{{event.note_link}}|{{event.title}}]] {{#if event.location}}@ {{event.location}}{{/if}}
 
  # Create meeting notes for events
  - for_each_event:
      conditions:
        - type: meeting
        - attendees_count: ">1"
      actions:
        - create_note:
            template: meeting-notes-template
            folder: 10-meetings
            link_in_calendar: true

Step 5: Set Top 3 Priorities (Manual)

In the daily note, manually write your top 3 priorities:

  1. Most important task (must finish today)
  2. Second priority (should finish today)
  3. Third priority (good to finish today)

Tips for choosing priorities:

  • Align with weekly/monthly goals
  • Consider energy levels
  • Balance urgent vs. important
  • Mix different types of work

Step 6: Time Block Schedule (Manual/Assisted)

// Plugin: Suggest Time Blocks
async function suggestTimeBlocks() {
  const today = await lokud.notes.getDaily();
  const tasks = await lokud.databases.query('Tasks', {
    filters: { status: 'Today' }
  });
 
  // Group tasks by energy level
  const highEnergy = tasks.filter(t => t.energy === 'High Energy');
  const mediumEnergy = tasks.filter(t => t.energy === 'Medium Energy');
  const lowEnergy = tasks.filter(t => t.energy === 'Low Energy');
 
  // Suggest schedule based on typical energy curve
  const schedule = {
    '09:00 - 11:00': highEnergy[0], // Peak morning energy
    '11:00 - 12:00': mediumEnergy[0],
    '13:00 - 14:00': lowEnergy[0], // Post-lunch dip
    '14:00 - 16:00': highEnergy[1], // Afternoon peak
    '16:00 - 17:00': mediumEnergy[1],
  };
 
  return schedule;
}

Complete Morning Routine Checklist

## Morning Routine Checklist
 
- [ ] Open today's daily note (auto-generated at 6am)
- [ ] Review yesterday's note
  - [ ] Complete evening reflection
  - [ ] Carry over incomplete tasks
- [ ] Check overdue tasks (auto-populated)
- [ ] Review today's tasks from database (auto-populated)
- [ ] Check calendar events (auto-populated)
- [ ] Fill in morning reflection
  - [ ] How do I feel?
  - [ ] 3 things I'm grateful for
  - [ ] What would make today great?
- [ ] Set top 3 priorities
- [ ] Assign tasks to time blocks
- [ ] Review schedule for conflicts
- [ ] Start first priority task
 
**Total time**: 10-15 minutes

Customization Options

Quick Version (5 minutes):

  • Skip gratitude and reflection
  • Focus only on top 3 priorities and calendar

Extended Version (30 minutes):

  • Add morning pages (free writing)
  • Include weekly/monthly goal review
  • Add habit tracking
  • Include health metrics (sleep, exercise)

Team Version:

  • Check team channel for updates
  • Review team calendar
  • Post daily standup
  • Check for blockers

Blog Writing Workflow

Use Case: From idea to published blog post with SEO optimization

Time Required: 4-8 hours (over several days)

Difficulty: Intermediate

Overview

A complete blog writing process from ideation through publication, including research, drafting, editing, and promotion.

Stage 1: Idea Capture

Idea Template

# templates/blog-idea-template.md
---
title: "Blog Idea: {{title}}"
type: blog-idea
status: idea
created: "{{date}}"
tags: [blog-idea]
---
 
# {{title}}
 
## Core Concept
 
What is this post about in one sentence?
 
## Target Audience
 
Who is this for?
 
## Reader Problem
 
What problem does this solve for the reader?
 
## Angle/Hook
 
What makes this post unique or interesting?
 
## Potential Headlines
 
1.
2.
3.
4.
5.
 
## Key Points
 
-
-
-
 
## SEO Keywords
 
Primary:
Secondary:
Long-tail:
 
## Competitive Analysis
 
Similar posts:
- [Title](URL) - What they did well / What's missing
 
## Next Steps
 
- [ ] Research keywords
- [ ] Validate idea
- [ ] Create outline

Idea Capture Process

# automation/blog-idea-capture.yaml
 
# Quick capture from anywhere
keyboard_shortcut: "Cmd+Shift+B"
 
actions:
  - prompt_user:
      fields:
        - name: idea
          label: "Blog post idea"
          type: text
          required: true
 
  - create_note:
      template: blog-idea-template
      folder: 01-ideas/blog
      filename: "{{input.idea | slug}}.md"
      frontmatter:
        title: "{{input.idea}}"
 
  - add_to_database:
      base: Content Calendar
      fields:
        title: "{{input.idea}}"
        type: Blog Post
        status: Idea
        created: "{{date:today}}"
 
  - notify:
      message: "Blog idea captured!"

Stage 2: Research & Validation

Research Template

# templates/blog-research-template.md
 
## Keyword Research
 
### Primary Keyword
- Keyword: ""
- Search Volume:
- Difficulty:
- CPC:
 
### Secondary Keywords
1.
2.
3.
 
### Long-tail Keywords
1.
2.
3.
 
## Competitive Research
 
### Top Ranking Posts
 
#### Post 1: [Title](URL)
- Word count:
- What works:
- What's missing:
- Backlinks:
 
#### Post 2: [Title](URL)
- Word count:
- What works:
- What's missing:
- Backlinks:
 
#### Post 3: [Title](URL)
- Word count:
- What works:
- What's missing:
- Backlinks:
 
## Content Gaps
 
What are competitors not covering?
1.
2.
3.
 
## Our Unique Angle
 
How will our post be different/better?
 
## Target Metrics
 
- Target word count:
- Target ranking position:
- Estimated traffic:
 
## Sources & References
 
1.
2.
3.

Stage 3: Outline Creation

Blog Outline Template

# templates/blog-outline-template.md
---
title: "{{title}}"
type: blog-outline
status: outlining
target_words: 2000
seo_title: ""
meta_description: ""
tags: [blog-post, outline]
---
 
# {{title}}
 
## SEO Metadata
 
**SEO Title** (50-60 chars): ""
**Meta Description** (150-160 chars): ""
**URL Slug**: ""
**Primary Keyword**: ""
**Secondary Keywords**: ""
 
## Outline
 
### Introduction (150-200 words)
- Hook: (Start with a question, statistic, or story)
- Problem statement:
- What reader will learn:
- Why they should keep reading:
 
### Section 1: [Heading with Keyword] (300-400 words)
 
**Key Points:**
-
-
 
**Examples/Data:**
-
 
**Images:**
- [ ] Screenshot/diagram of
 
### Section 2: [Heading with Keyword] (300-400 words)
 
**Key Points:**
-
-
 
**Examples/Data:**
-
 
**Images:**
- [ ] Screenshot/diagram of
 
### Section 3: [Heading with Keyword] (400-500 words)
 
**Key Points:**
-
-
 
**Examples/Data:**
-
 
**Images:**
- [ ] Screenshot/diagram of
 
### Section 4: [Heading with Keyword] (300-400 words)
 
**Key Points:**
-
-
 
**Examples/Data:**
-
 
**Images:**
- [ ] Screenshot/diagram of
 
### Conclusion (150-200 words)
- Recap key points:
- Call to action:
- Next steps for reader:
 
## Content Elements
 
- [ ] Introduction with hook
- [ ] 3-5 main sections with H2 headings
- [ ] Subheadings (H3) for each section
- [ ] 5-10 images/screenshots
- [ ] 2-3 examples or case studies
- [ ] 1-2 quotes or statistics
- [ ] Bulleted or numbered lists
- [ ] Call-to-action (CTA)
- [ ] Internal links (3-5)
- [ ] External links (2-3)
 
## Images Needed
 
1. Featured image (1200x630px)
2. Header image
3.
4.
5.
 
## Internal Links
 
Link to these existing posts:
1.
2.
3.
 
## External Links
 
Authoritative sources:
1.
2.
3.

Stage 4: First Draft

# automation/start-blog-draft.yaml
 
trigger:
  type: command
  command: "Create Blog Draft"
 
actions:
  # Select from outlined posts
  - query_database:
      base: Content Calendar
      filters:
        - field: Status
          operator: equals
          value: Outlined
 
  - prompt_user:
      message: "Select post to draft"
      options: "{{query_results}}"
 
  # Create draft from outline
  - create_note:
      source: "{{selected_post.outline}}"
      template: blog-draft-template
      folder: 03-production/blog-drafts
      filename: "draft-{{selected_post.slug}}.md"
 
  # Update status
  - update_database_entry:
      base: Content Calendar
      entry_id: "{{selected_post.id}}"
      fields:
        status: Drafting
        draft_started: "{{date:today}}"
 
  - start_timer:
      task: "Draft: {{selected_post.title}}"

Writing Session

## Writing Tips
 
### Before Writing
- [ ] Review outline
- [ ] Gather all research
- [ ] Set timer (use Pomodoro: 25 min focus)
- [ ] Eliminate distractions
 
### During Writing
- Write full paragraphs, don't worry about perfection
- Use [placeholders] for things to add later
- Add [IMAGE HERE] markers for visuals
- Link [[related-notes]] as you write
- Don't edit while drafting
 
### After Each Section
- [ ] Read it out loud
- [ ] Check it addresses the key points
- [ ] Verify examples are clear
- [ ] Add transition to next section
 
### Daily Progress
Track progress in daily note:
- **Words written today**: XXX
- **Total word count**: XXX / {{target_words}}
- **Sections complete**: X / Y
- **Next session**: Continue with [section name]

Stage 5: Editing & Refinement

Editing Checklist

# Editing Checklist
 
## Content Edit (First Pass)
- [ ] Introduction clearly states what post covers
- [ ] Each section delivers on its heading promise
- [ ] Examples are specific and relevant
- [ ] Logic flows from one section to next
- [ ] Conclusion summarizes and includes CTA
- [ ] All [placeholders] filled in
- [ ] All claims backed by data/sources
 
## Line Edit (Second Pass)
- [ ] Remove unnecessary words
- [ ] Vary sentence length
- [ ] Break up long paragraphs (max 3-4 lines)
- [ ] Active voice (not passive)
- [ ] Specific verbs (not generic)
- [ ] Clear transitions between ideas
 
## SEO Edit (Third Pass)
- [ ] Primary keyword in title
- [ ] Primary keyword in first paragraph
- [ ] Primary keyword in at least one H2
- [ ] Secondary keywords naturally included
- [ ] Internal links to 3-5 related posts
- [ ] External links to 2-3 authoritative sources
- [ ] Image alt text includes keywords
- [ ] Meta description compelling and accurate
- [ ] URL slug contains keyword
 
## Technical Edit (Fourth Pass)
- [ ] All links work
- [ ] Images load correctly
- [ ] Code blocks formatted properly
- [ ] Lists formatted consistently
- [ ] Headings hierarchical (H2 > H3 > H4)
- [ ] Spelling and grammar checked
- [ ] Consistent formatting
 
## Final Polish (Fifth Pass)
- [ ] Read entire post out loud
- [ ] Check on mobile preview
- [ ] Verify word count meets target
- [ ] Featured image selected
- [ ] All images have alt text
- [ ] Bio and author box added
- [ ] Related posts selected

Stage 6: Publication

# automation/publish-blog-post.yaml
 
trigger:
  type: command
  command: "Publish Blog Post"
 
actions:
  # Run pre-publish checks
  - run_checklist:
      checklist: blog-editing-checklist
      required: true
 
  # Export to format
  - export_note:
      format: html
      include_frontmatter: false
      output: ./exports/{{slug}}.html
 
  # Copy to CMS
  - api_call:
      service: wordpress
      endpoint: /posts
      method: POST
      data:
        title: "{{seo_title}}"
        content: "{{html_content}}"
        status: draft
        excerpt: "{{meta_description}}"
        slug: "{{slug}}"
        categories: "{{categories}}"
        tags: "{{tags}}"
 
  # Update database
  - update_database_entry:
      base: Content Calendar
      fields:
        status: Published
        published_date: "{{date:today}}"
        url: "{{wordpress_url}}"
 
  # Archive draft
  - move_note:
      from: "{{draft_path}}"
      to: 04-published/blog/{{date:YYYY}}/{{slug}}.md
 
  # Notify
  - notify:
      title: "Blog post published!"
      message: "{{title}}"
      link: "{{published_url}}"

Stage 7: Promotion

Promotion Checklist

# Post-Publication Checklist
 
## Immediate (Day 1)
- [ ] Share on Twitter with key takeaway
- [ ] Share on LinkedIn with context
- [ ] Post in relevant Facebook groups
- [ ] Share on Instagram stories
- [ ] Send email newsletter
- [ ] Post in Slack communities
- [ ] Submit to relevant subreddits
 
## Week 1
- [ ] Create Twitter thread with main points
- [ ] Create LinkedIn carousel
- [ ] Create Instagram posts (3-5)
- [ ] Reach out to mentioned sources
- [ ] Email to personal network
- [ ] Comment in related blog posts with link
 
## Week 2-4
- [ ] Repurpose into YouTube video
- [ ] Create podcast episode
- [ ] Submit to content aggregators
- [ ] Guest post with link
- [ ] Update old posts with internal link
 
## Ongoing
- [ ] Track analytics weekly
- [ ] Update based on performance
- [ ] Respond to comments
- [ ] Monitor backlinks

Complete Workflow Timeline

## Blog Post Timeline (Example)
 
**Week 1: Research & Planning**
- Monday: Idea capture & validation (1 hr)
- Tuesday: Keyword research (2 hrs)
- Wednesday: Competitive analysis (2 hrs)
- Thursday: Create outline (2 hrs)
- Friday: Review & refine outline (1 hr)
 
**Week 2: Drafting**
- Monday: Write introduction + section 1 (2 hrs)
- Tuesday: Write sections 2-3 (2 hrs)
- Wednesday: Write sections 4-5 (2 hrs)
- Thursday: Write conclusion (1 hr)
- Friday: Let it rest
 
**Week 3: Editing**
- Monday: Content edit (2 hrs)
- Tuesday: Line edit (2 hrs)
- Wednesday: SEO edit (1 hr)
- Thursday: Technical edit (1 hr)
- Friday: Final polish + images (2 hrs)
 
**Week 4: Publication & Promotion**
- Monday: Publish + social sharing (2 hrs)
- Tuesday-Friday: Promotion activities (1 hr/day)
 
**Total time**: ~30 hours over 4 weeks
**Actual writing**: ~8 hours
**Editing**: ~8 hours
**Research/Planning**: ~8 hours
**Promotion**: ~6 hours

Research Workflow

Use Case: Collect, organize, and synthesize research for academic or professional projects

Time Required: Ongoing

Difficulty: Advanced

Overview

A systematic approach to research using the Zettelkasten method combined with digital tools.

Stage 1: Literature Collection

# automation/collect-paper.yaml
 
# Multiple input methods
input_methods:
  # From DOI
  - trigger: command
    command: "Import Paper from DOI"
    actions:
      - prompt_user:
          field: doi
          label: "Enter DOI"
 
      - fetch_metadata:
          source: crossref
          doi: "{{input.doi}}"
 
      - create_note:
          template: literature-note-template
          folder: 01-literature/by-year/{{metadata.year}}
          filename: "{{metadata.first_author}}-{{metadata.year}}.md"
 
      - download_pdf:
          doi: "{{input.doi}}"
          destination: 01-literature/pdfs/
 
      - add_to_database:
          base: Papers
          fields:
            title: "{{metadata.title}}"
            authors: "{{metadata.authors}}"
            year: "{{metadata.year}}"
            doi: "{{input.doi}}"
            pdf: "{{pdf_path}}"
            status: To Read
 
  # From PDF
  - trigger: file_dropped
    file_type: pdf
    folder: 00-inbox
    actions:
      - extract_metadata:
          source: pdf
          file: "{{dropped_file}}"
 
      - create_note:
          template: literature-note-template
          folder: 01-literature/by-year/{{metadata.year}}
 
  # From web clipper
  - trigger: web_clip
    domains: ["arxiv.org", "scholar.google.com"]
    actions:
      - parse_metadata:
          from: webpage
 
      - create_note:
          template: literature-note-template

Stage 2: Reading & Annotation

# Reading Process
 
## First Pass: Screening (5-10 minutes)
- [ ] Read abstract
- [ ] Scan figures and tables
- [ ] Read conclusion
- [ ] Decision: Read fully, skim, or skip?
 
## Second Pass: Skim (30-60 minutes)
- [ ] Read introduction thoroughly
- [ ] Read section headings
- [ ] Read first/last sentence of paragraphs
- [ ] Note key equations/algorithms
- [ ] List questions that arise
 
## Third Pass: Deep Read (2-4 hours)
- [ ] Read entire paper carefully
- [ ] Understand every claim
- [ ] Question assumptions
- [ ] Note strengths/weaknesses
- [ ] Recreate paper from memory (test understanding)

Annotation System

# Annotation Legend
 
## Highlighting Colors
- **Yellow**: Key findings
- **Green**: Methodology
- **Blue**: Interesting idea/connection
- **Red**: Questionable claim/weakness
- **Purple**: Definition/terminology
 
## Margin Notes
- `?`: Question or confusion
- `!`: Important/surprising
- `→`: Connection to other work
- `*`: Action item
- `=`: Similar to another paper
- `≠`: Contradicts another paper
 
## Tags in PDF
#methodology-innovative
#results-significant
#writing-example
#cite-in-intro
#replicate-experiment

Stage 3: Note-Taking (Zettelkasten Method)

Literature Notes (Paper Summary)

# Literature Note Example
 
---
title: "Smith et al. (2024) - Deep Learning for X"
type: literature-note
source: paper
doi: 10.1234/example
date_read: 2025-01-20
tags: [deep-learning, X, methodology]
status: read
rating: 4
---
 
# Smith et al. (2024) - Deep Learning for X
 
## Bibliographic Info
- **Authors**: Smith, A., Jones, B., Brown, C.
- **Year**: 2024
- **Journal**: Nature Machine Intelligence
- **DOI**: 10.1234/example
- **PDF**: [[pdfs/smith-2024.pdf]]
 
## One-Sentence Summary
Proposes a novel deep learning architecture that improves X by 25% through Y mechanism.
 
## Key Contributions
1. Novel architecture design
2. Theoretical analysis of why it works
3. Empirical validation on 5 datasets
4. Open-source implementation
 
## Methodology
- **Approach**: Supervised learning with novel architecture
- **Data**: 5 benchmark datasets (ImageNet, COCO, etc.)
- **Evaluation**: Accuracy, F1, inference time
- **Baselines**: ResNet, VGG, Transformer
 
## Results
- 25% improvement over SOTA
- 3x faster inference
- Works across domains
 
## Strengths
- Rigorous experimental design
- Strong theoretical foundation
- Reproducible (code available)
- Clear writing
 
## Weaknesses
- Limited to supervised learning
- Expensive to train
- Doesn't address edge cases
 
## Relevance to My Research
This architecture could potentially be applied to my problem of Z. The theoretical framework might explain why my approach works.
 
## Permanent Notes Generated
- [[concept-attention-mechanism|Attention Mechanism Concept]]
- [[method-training-large-models|Training Large Models]]
- [[theory-why-deep-learning-works|Why Deep Learning Works]]
 
## Questions
- Can this scale to even larger datasets?
- What about unsupervised settings?
- How does it handle distribution shift?
 
## Related Papers
- [[jones-2023|Jones 2023]] - Similar approach
- [[brown-2022|Brown 2022]] - Competing method
- [[wilson-2024|Wilson 2024]] - Follow-up work
 
## Citation
```bibtex
@article{smith2024deep,
  title={Deep Learning for X},
  author={Smith, A. and Jones, B. and Brown, C.},
  journal={Nature Machine Intelligence},
  year={2024},
  doi={10.1234/example}
}

#### Permanent Notes (Atomic Concepts)

```markdown
# Permanent Note Example

---
title: "Attention Mechanism Concept"
type: permanent-note
created: 2025-01-20
tags: [concept, deep-learning, attention]
---

# Attention Mechanism

## Core Idea
Attention allows a model to focus on relevant parts of the input when making predictions, rather than processing all inputs equally.

## Key Insight
Inspired by human visual attention - we focus on important parts of a scene rather than processing everything equally.

## Mathematical Formulation

Attention(Q, K, V) = softmax(QK^T / √d_k)V

Where:

  • Q: Query vectors (what we’re looking for)
  • K: Key vectors (what we have)
  • V: Value vectors (what we return)
  • d_k: Dimension of keys (for scaling)

## Intuition
1. Compare query against all keys (compute relevance)
2. Get attention weights (softmax of comparisons)
3. Weight values by attention scores
4. Sum weighted values

## Applications
- Machine translation [[paper-attention-translation|Bahdanau 2015]]
- Image captioning [[paper-show-attend-tell|Xu 2015]]
- General sequence modeling [[paper-transformer|Vaswani 2017]]

## Advantages
- Allows variable-length inputs
- Provides interpretability (can visualize attention)
- Captures long-range dependencies

## Disadvantages
- Quadratic complexity in sequence length
- Requires careful initialization
- Can be unstable during training

## Variants
- Self-attention [[concept-self-attention|Note]]
- Cross-attention [[concept-cross-attention|Note]]
- Multi-head attention [[concept-multi-head-attention|Note]]
- Sparse attention [[concept-sparse-attention|Note]]

## Personal Insights
Could attention be applied to my research problem? Instead of processing all features equally, selectively focus on relevant features based on context.

## Open Questions
- What is the minimum attention needed?
- Can we learn what to attend to?
- How does attention relate to biological attention?

## Related Concepts
- [[concept-transformers|Transformers]]
- [[concept-sequence-models|Sequence Models]]
- [[concept-neural-networks|Neural Networks]]

## Source Notes
- [[smith-2024|Smith et al. 2024]]
- [[bahdanau-2015|Bahdanau et al. 2015]]
- [[vaswani-2017|Vaswani et al. 2017]]

Stage 4: Synthesis & Writing

# automation/research-synthesis.yaml
 
# Collect related notes
gather_notes:
  - query: "{{research_topic}}"
  - filters:
    - type: permanent-note
    - tags_include: [{{topic_tags}}]
  - sort_by: connection_strength
 
# Create synthesis note
create_synthesis:
  - template: synthesis-template
  - include:
    - related_notes: all
    - connections_map: visual
    - timeline: chronological
    - key_insights: extracted
 
# Generate outline
generate_outline:
  - analyze_notes: "{{gathered_notes}}"
  - identify_themes: auto
  - suggest_structure: hierarchical
  - create_outline: interactive

Customization Tips

For Different Fields:

  • Sciences: Add experiment tracking, lab notebooks
  • Humanities: Add primary source analysis, historical context
  • Engineering: Add code experiments, benchmarks
  • Business: Add case studies, market analysis

For Different Goals:

  • Literature Review: Focus on systematic collection and synthesis
  • Thesis/Dissertation: Add chapter-by-chapter organization
  • Grant Proposal: Add impact tracking and citations
  • Blog/Book: Add audience-focused synthesis

Sprint Planning Workflow

Use Case: Agile team sprint planning and execution

Time Required: 2 hours planning, 2 weeks execution

Difficulty: Intermediate

[Workflow content continuing with Sprint Planning details, including sprint setup, daily standups, retrospectives, etc.]


Learning Workflow

Use Case: Structured learning with spaced repetition and knowledge capture

Time Required: Ongoing

Difficulty: Beginner-Intermediate

[Workflow content with learning process, note-taking, review schedule, etc.]


Next Steps: Choose a workflow that matches your needs, set up the required templates and databases, configure automations, and start using it. Refine based on what works for you.