skills/claude-scientific-skills
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Replace all instances of Sonnet to Opus

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This commit is contained in:
Timothy Kassis
2026-01-21 09:16:34 -05:00
parent c5413a6b5c
commit cd537c1af6
6 changed files with 24 additions and 30 deletions
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6
scientific-skills/markitdown/SKILL.md
View File

@@ -139,7 +139,7 @@ client = OpenAI(
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5", # recommended for scientific vision
llm_model="anthropic/claude-opus-4.5", # recommended for scientific vision
llm_prompt="Describe this image in detail for scientific documentation"
)
@@ -262,7 +262,7 @@ client = OpenAI(
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5", # recommended for presentations
llm_model="anthropic/claude-opus-4.5", # recommended for presentations
llm_prompt="Describe this slide image in detail, focusing on key visual elements and data"
)
@@ -419,7 +419,7 @@ client = OpenAI(
md_ai = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5",
llm_model="anthropic/claude-opus-4.5",
llm_prompt="Describe scientific figures with technical precision"
)
```

8
scientific-skills/markitdown/assets/example_usage.md
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@@ -101,7 +101,7 @@ from openai import OpenAI
client = OpenAI()
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5",
llm_model="anthropic/claude-opus-4.5",
llm_prompt="Describe this scientific slide, focusing on data and key findings"
)
@@ -143,7 +143,7 @@ Be technical and precise.
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5", # recommended for scientific vision
llm_model="anthropic/claude-opus-4.5", # recommended for scientific vision
llm_prompt=scientific_prompt
)
@@ -167,14 +167,14 @@ client = OpenAI(
# Scientific papers - use Claude for technical analysis
scientific_md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5",
llm_model="anthropic/claude-opus-4.5",
llm_prompt="Describe scientific figures with technical precision"
)
# Presentations - use GPT-4o for visual understanding
presentation_md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5",
llm_model="anthropic/claude-opus-4.5",
llm_prompt="Summarize slide content and key visual elements"
)

13
scientific-skills/markitdown/references/api_reference.md
View File

@@ -23,7 +23,7 @@ md = MarkItDown(
| Parameter | Type | Default | Description |
|-----------|------|---------|-------------|
| `llm_client` | OpenAI client | `None` | OpenAI-compatible client for AI image descriptions |
| `llm_model` | str | `None` | Model name (e.g., "anthropic/claude-sonnet-4.5") for image descriptions |
| `llm_model` | str | `None` | Model name (e.g., "anthropic/claude-opus-4.5") for image descriptions |
| `llm_prompt` | str | `None` | Custom prompt for image description |
| `docintel_endpoint` | str | `None` | Azure Document Intelligence endpoint |
| `enable_plugins` | bool | `False` | Enable 3rd-party plugins |
@@ -235,7 +235,7 @@ client = OpenAI(
# Create MarkItDown with AI support
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5", # recommended for scientific vision
llm_model="anthropic/claude-opus-4.5", # recommended for scientific vision
llm_prompt="Describe this image in detail for scientific documentation"
)
@@ -246,11 +246,8 @@ result = md.convert("presentation.pptx")
### Available Models via OpenRouter
Popular models with vision support:
- `anthropic/claude-sonnet-4.5` - **Recommended for scientific vision**
- `anthropic/claude-opus-4.5` - Advanced vision model
- `openai/gpt-4o` - GPT-4 Omni
- `openai/gpt-4-vision` - GPT-4 Vision
- `google/gemini-pro-vision` - Gemini Pro Vision
- `anthropic/claude-opus-4.5` - **Recommended for scientific vision**
- `google/gemini-3-pro-preview` - Gemini Pro Vision
See https://openrouter.ai/models for the complete list.
@@ -269,7 +266,7 @@ Be precise and technical.
md = MarkItDown(
llm_client=client,
llm_model="anthropic/claude-sonnet-4.5",
llm_model="anthropic/claude-opus-4.5",
llm_prompt=scientific_prompt
)
```

19
scientific-skills/markitdown/scripts/convert_with_ai.py
View File

@@ -71,7 +71,7 @@ def convert_with_ai(
input_file: Path,
output_file: Path,
api_key: str,
model: str = "anthropic/claude-sonnet-4.5",
model: str = "anthropic/claude-opus-4.5",
prompt_type: str = "general",
custom_prompt: str = None
) -> bool:
@@ -82,7 +82,7 @@ def convert_with_ai(
input_file: Path to input file
output_file: Path to output Markdown file
api_key: OpenRouter API key
model: Model name (default: anthropic/claude-sonnet-4.5)
model: Model name (default: anthropic/claude-opus-4.5)
prompt_type: Type of prompt to use
custom_prompt: Custom prompt (overrides prompt_type)
@@ -154,10 +154,10 @@ Examples:
python convert_with_ai.py paper.pdf output.md --prompt-type scientific
# Convert a presentation with custom model
python convert_with_ai.py slides.pptx slides.md --model anthropic/claude-sonnet-4.5 --prompt-type presentation
python convert_with_ai.py slides.pptx slides.md --model anthropic/claude-opus-4.5 --prompt-type presentation
# Use custom prompt with advanced vision model
python convert_with_ai.py diagram.png diagram.md --model anthropic/claude-sonnet-4.5 --custom-prompt "Describe this technical diagram"
python convert_with_ai.py diagram.png diagram.md --model anthropic/claude-opus-4.5 --custom-prompt "Describe this technical diagram"
# Set API key via environment variable
export OPENROUTER_API_KEY="sk-or-v1-..."
@@ -167,11 +167,8 @@ Environment Variables:
OPENROUTER_API_KEY OpenRouter API key (required if not passed via --api-key)
Popular Models (use with --model):
anthropic/claude-sonnet-4.5 - Recommended for scientific vision
anthropic/claude-opus-4.5 - Advanced vision model
openai/gpt-4o - GPT-4 Omni (vision support)
openai/gpt-4-vision - GPT-4 Vision
google/gemini-pro-vision - Gemini Pro Vision
anthropic/claude-opus-4.5 - Recommended for scientific vision
google/gemini-3-pro-preview - Gemini Pro Vision
"""
)
@@ -183,8 +180,8 @@ Popular Models (use with --model):
)
parser.add_argument(
'--model', '-m',
default='anthropic/claude-sonnet-4.5',
help='Model to use via OpenRouter (default: anthropic/claude-sonnet-4.5)'
default='anthropic/claude-opus-4.5',
help='Model to use via OpenRouter (default: anthropic/claude-opus-4.5)'
)
parser.add_argument(
'--prompt-type', '-t',

4
scientific-skills/neuropixels-analysis/references/AI_CURATION.md
View File

@@ -67,7 +67,7 @@ result = npa.analyze_unit_visually(
analyzer,
unit_id=0,
api_client=client,
model='claude-3-5-sonnet-20241022',
model='claude-opus-4.5',
task='quality_assessment'
)
@@ -287,7 +287,7 @@ Currently supported APIs:
| Provider | Client | Model Examples |
|----------|--------|----------------|
| Anthropic | `anthropic.Anthropic()` | claude-3-5-sonnet-20241022 |
| Anthropic | `anthropic.Anthropic()` | claude-opus-4.5 |
| OpenAI | `openai.OpenAI()` | gpt-4-vision-preview |
| Google | `google.generativeai` | gemini-pro-vision |

4
scientific-skills/neuropixels-analysis/references/api_reference.md
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@@ -284,7 +284,7 @@ npa.analyze_unit_visually(
analyzer: SortingAnalyzer,
unit_id: int,
api_client: Any = None,
model: str = 'claude-3-5-sonnet-20241022',
model: str = 'claude-opus-4.5',
task: str = 'quality_assessment',
custom_prompt: str = None,
) -> dict
@@ -304,7 +304,7 @@ npa.batch_visual_curation(
analyzer: SortingAnalyzer,
unit_ids: list = None,
api_client: Any = None,
model: str = 'claude-3-5-sonnet-20241022',
model: str = 'claude-opus-4.5',
output_dir: str = None,
progress_callback: callable = None,
) -> dict