@synsci/cli-darwin-x64-baseline 1.1.76 → 1.1.78
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/bin/skills/adaptyv/SKILL.md +114 -0
- package/bin/skills/adaptyv/reference/api_reference.md +308 -0
- package/bin/skills/adaptyv/reference/examples.md +913 -0
- package/bin/skills/adaptyv/reference/experiments.md +360 -0
- package/bin/skills/adaptyv/reference/protein_optimization.md +637 -0
- package/bin/skills/aeon/SKILL.md +374 -0
- package/bin/skills/aeon/references/anomaly_detection.md +154 -0
- package/bin/skills/aeon/references/classification.md +144 -0
- package/bin/skills/aeon/references/clustering.md +123 -0
- package/bin/skills/aeon/references/datasets_benchmarking.md +387 -0
- package/bin/skills/aeon/references/distances.md +256 -0
- package/bin/skills/aeon/references/forecasting.md +140 -0
- package/bin/skills/aeon/references/networks.md +289 -0
- package/bin/skills/aeon/references/regression.md +118 -0
- package/bin/skills/aeon/references/segmentation.md +163 -0
- package/bin/skills/aeon/references/similarity_search.md +187 -0
- package/bin/skills/aeon/references/transformations.md +246 -0
- package/bin/skills/alphafold-database/SKILL.md +513 -0
- package/bin/skills/alphafold-database/references/api_reference.md +423 -0
- package/bin/skills/anndata/SKILL.md +400 -0
- package/bin/skills/anndata/references/best_practices.md +525 -0
- package/bin/skills/anndata/references/concatenation.md +396 -0
- package/bin/skills/anndata/references/data_structure.md +314 -0
- package/bin/skills/anndata/references/io_operations.md +404 -0
- package/bin/skills/anndata/references/manipulation.md +516 -0
- package/bin/skills/arboreto/SKILL.md +243 -0
- package/bin/skills/arboreto/references/algorithms.md +138 -0
- package/bin/skills/arboreto/references/basic_inference.md +151 -0
- package/bin/skills/arboreto/references/distributed_computing.md +242 -0
- package/bin/skills/arboreto/scripts/basic_grn_inference.py +97 -0
- package/bin/skills/astropy/SKILL.md +331 -0
- package/bin/skills/astropy/references/coordinates.md +273 -0
- package/bin/skills/astropy/references/cosmology.md +307 -0
- package/bin/skills/astropy/references/fits.md +396 -0
- package/bin/skills/astropy/references/tables.md +489 -0
- package/bin/skills/astropy/references/time.md +404 -0
- package/bin/skills/astropy/references/units.md +178 -0
- package/bin/skills/astropy/references/wcs_and_other_modules.md +373 -0
- package/bin/skills/benchling-integration/SKILL.md +480 -0
- package/bin/skills/benchling-integration/references/api_endpoints.md +883 -0
- package/bin/skills/benchling-integration/references/authentication.md +379 -0
- package/bin/skills/benchling-integration/references/sdk_reference.md +774 -0
- package/bin/skills/biopython/SKILL.md +443 -0
- package/bin/skills/biopython/references/advanced.md +577 -0
- package/bin/skills/biopython/references/alignment.md +362 -0
- package/bin/skills/biopython/references/blast.md +455 -0
- package/bin/skills/biopython/references/databases.md +484 -0
- package/bin/skills/biopython/references/phylogenetics.md +566 -0
- package/bin/skills/biopython/references/sequence_io.md +285 -0
- package/bin/skills/biopython/references/structure.md +564 -0
- package/bin/skills/biorxiv-database/SKILL.md +483 -0
- package/bin/skills/biorxiv-database/references/api_reference.md +280 -0
- package/bin/skills/biorxiv-database/scripts/biorxiv_search.py +445 -0
- package/bin/skills/bioservices/SKILL.md +361 -0
- package/bin/skills/bioservices/references/identifier_mapping.md +685 -0
- package/bin/skills/bioservices/references/services_reference.md +636 -0
- package/bin/skills/bioservices/references/workflow_patterns.md +811 -0
- package/bin/skills/bioservices/scripts/batch_id_converter.py +347 -0
- package/bin/skills/bioservices/scripts/compound_cross_reference.py +378 -0
- package/bin/skills/bioservices/scripts/pathway_analysis.py +309 -0
- package/bin/skills/bioservices/scripts/protein_analysis_workflow.py +408 -0
- package/bin/skills/brenda-database/SKILL.md +719 -0
- package/bin/skills/brenda-database/references/api_reference.md +537 -0
- package/bin/skills/brenda-database/scripts/brenda_queries.py +844 -0
- package/bin/skills/brenda-database/scripts/brenda_visualization.py +772 -0
- package/bin/skills/brenda-database/scripts/enzyme_pathway_builder.py +1053 -0
- package/bin/skills/cellxgene-census/SKILL.md +511 -0
- package/bin/skills/cellxgene-census/references/census_schema.md +182 -0
- package/bin/skills/cellxgene-census/references/common_patterns.md +351 -0
- package/bin/skills/chembl-database/SKILL.md +389 -0
- package/bin/skills/chembl-database/references/api_reference.md +272 -0
- package/bin/skills/chembl-database/scripts/example_queries.py +278 -0
- package/bin/skills/cirq/SKILL.md +346 -0
- package/bin/skills/cirq/references/building.md +307 -0
- package/bin/skills/cirq/references/experiments.md +572 -0
- package/bin/skills/cirq/references/hardware.md +515 -0
- package/bin/skills/cirq/references/noise.md +515 -0
- package/bin/skills/cirq/references/simulation.md +350 -0
- package/bin/skills/cirq/references/transformation.md +416 -0
- package/bin/skills/clinicaltrials-database/SKILL.md +507 -0
- package/bin/skills/clinicaltrials-database/references/api_reference.md +358 -0
- package/bin/skills/clinicaltrials-database/scripts/query_clinicaltrials.py +215 -0
- package/bin/skills/clinpgx-database/SKILL.md +638 -0
- package/bin/skills/clinpgx-database/references/api_reference.md +757 -0
- package/bin/skills/clinpgx-database/scripts/query_clinpgx.py +518 -0
- package/bin/skills/clinvar-database/SKILL.md +362 -0
- package/bin/skills/clinvar-database/references/api_reference.md +227 -0
- package/bin/skills/clinvar-database/references/clinical_significance.md +218 -0
- package/bin/skills/clinvar-database/references/data_formats.md +358 -0
- package/bin/skills/cobrapy/SKILL.md +463 -0
- package/bin/skills/cobrapy/references/api_quick_reference.md +655 -0
- package/bin/skills/cobrapy/references/workflows.md +593 -0
- package/bin/skills/cosmic-database/SKILL.md +336 -0
- package/bin/skills/cosmic-database/references/cosmic_data_reference.md +220 -0
- package/bin/skills/cosmic-database/scripts/download_cosmic.py +231 -0
- package/bin/skills/dask/SKILL.md +456 -0
- package/bin/skills/dask/references/arrays.md +497 -0
- package/bin/skills/dask/references/bags.md +468 -0
- package/bin/skills/dask/references/best-practices.md +277 -0
- package/bin/skills/dask/references/dataframes.md +368 -0
- package/bin/skills/dask/references/futures.md +541 -0
- package/bin/skills/dask/references/schedulers.md +504 -0
- package/bin/skills/datacommons-client/SKILL.md +255 -0
- package/bin/skills/datacommons-client/references/getting_started.md +417 -0
- package/bin/skills/datacommons-client/references/node.md +250 -0
- package/bin/skills/datacommons-client/references/observation.md +185 -0
- package/bin/skills/datacommons-client/references/resolve.md +246 -0
- package/bin/skills/datamol/SKILL.md +706 -0
- package/bin/skills/datamol/references/conformers_module.md +131 -0
- package/bin/skills/datamol/references/core_api.md +130 -0
- package/bin/skills/datamol/references/descriptors_viz.md +195 -0
- package/bin/skills/datamol/references/fragments_scaffolds.md +174 -0
- package/bin/skills/datamol/references/io_module.md +109 -0
- package/bin/skills/datamol/references/reactions_data.md +218 -0
- package/bin/skills/deepchem/SKILL.md +597 -0
- package/bin/skills/deepchem/references/api_reference.md +303 -0
- package/bin/skills/deepchem/references/workflows.md +491 -0
- package/bin/skills/deepchem/scripts/graph_neural_network.py +338 -0
- package/bin/skills/deepchem/scripts/predict_solubility.py +224 -0
- package/bin/skills/deepchem/scripts/transfer_learning.py +375 -0
- package/bin/skills/deeptools/SKILL.md +531 -0
- package/bin/skills/deeptools/assets/quick_reference.md +58 -0
- package/bin/skills/deeptools/references/effective_genome_sizes.md +116 -0
- package/bin/skills/deeptools/references/normalization_methods.md +410 -0
- package/bin/skills/deeptools/references/tools_reference.md +533 -0
- package/bin/skills/deeptools/references/workflows.md +474 -0
- package/bin/skills/deeptools/scripts/validate_files.py +195 -0
- package/bin/skills/deeptools/scripts/workflow_generator.py +454 -0
- package/bin/skills/denario/SKILL.md +215 -0
- package/bin/skills/denario/references/examples.md +494 -0
- package/bin/skills/denario/references/installation.md +213 -0
- package/bin/skills/denario/references/llm_configuration.md +265 -0
- package/bin/skills/denario/references/research_pipeline.md +471 -0
- package/bin/skills/diffdock/SKILL.md +483 -0
- package/bin/skills/diffdock/assets/batch_template.csv +4 -0
- package/bin/skills/diffdock/assets/custom_inference_config.yaml +90 -0
- package/bin/skills/diffdock/references/confidence_and_limitations.md +182 -0
- package/bin/skills/diffdock/references/parameters_reference.md +163 -0
- package/bin/skills/diffdock/references/workflows_examples.md +392 -0
- package/bin/skills/diffdock/scripts/analyze_results.py +334 -0
- package/bin/skills/diffdock/scripts/prepare_batch_csv.py +254 -0
- package/bin/skills/diffdock/scripts/setup_check.py +278 -0
- package/bin/skills/dnanexus-integration/SKILL.md +383 -0
- package/bin/skills/dnanexus-integration/references/app-development.md +247 -0
- package/bin/skills/dnanexus-integration/references/configuration.md +646 -0
- package/bin/skills/dnanexus-integration/references/data-operations.md +400 -0
- package/bin/skills/dnanexus-integration/references/job-execution.md +412 -0
- package/bin/skills/dnanexus-integration/references/python-sdk.md +523 -0
- package/bin/skills/document-skills/docx/LICENSE.txt +30 -0
- package/bin/skills/document-skills/docx/SKILL.md +233 -0
- package/bin/skills/document-skills/docx/docx-js.md +350 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chart.xsd +1499 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-chartDrawing.xsd +146 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-diagram.xsd +1085 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-lockedCanvas.xsd +11 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-main.xsd +3081 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-picture.xsd +23 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd +185 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/dml-wordprocessingDrawing.xsd +287 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/pml.xsd +1676 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-additionalCharacteristics.xsd +28 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd +144 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd +174 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd +25 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-customXmlSchemaProperties.xsd +18 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesCustom.xsd +59 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesExtended.xsd +56 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesVariantTypes.xsd +195 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-math.xsd +582 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd +25 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/sml.xsd +4439 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-main.xsd +570 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd +509 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-presentationDrawing.xsd +12 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-spreadsheetDrawing.xsd +108 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd +96 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/wml.xsd +3646 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ISO-IEC29500-4_2016/xml.xsd +116 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-contentTypes.xsd +42 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-coreProperties.xsd +50 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-digSig.xsd +49 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/ecma/fouth-edition/opc-relationships.xsd +33 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/mce/mc.xsd +75 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-2010.xsd +560 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-2012.xsd +67 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-2018.xsd +14 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-cex-2018.xsd +20 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-cid-2016.xsd +13 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-sdtdatahash-2020.xsd +4 -0
- package/bin/skills/document-skills/docx/ooxml/schemas/microsoft/wml-symex-2015.xsd +8 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/pack.py +159 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/unpack.py +29 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validate.py +69 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validation/__init__.py +15 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validation/base.py +951 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validation/docx.py +274 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validation/pptx.py +315 -0
- package/bin/skills/document-skills/docx/ooxml/scripts/validation/redlining.py +279 -0
- package/bin/skills/document-skills/docx/ooxml.md +610 -0
- package/bin/skills/document-skills/docx/scripts/__init__.py +1 -0
- package/bin/skills/document-skills/docx/scripts/document.py +1276 -0
- package/bin/skills/document-skills/docx/scripts/templates/comments.xml +3 -0
- package/bin/skills/document-skills/docx/scripts/templates/commentsExtended.xml +3 -0
- package/bin/skills/document-skills/docx/scripts/templates/commentsExtensible.xml +3 -0
- package/bin/skills/document-skills/docx/scripts/templates/commentsIds.xml +3 -0
- package/bin/skills/document-skills/docx/scripts/templates/people.xml +3 -0
- package/bin/skills/document-skills/docx/scripts/utilities.py +374 -0
- package/bin/skills/document-skills/pdf/LICENSE.txt +30 -0
- package/bin/skills/document-skills/pdf/SKILL.md +330 -0
- package/bin/skills/document-skills/pdf/forms.md +205 -0
- package/bin/skills/document-skills/pdf/reference.md +612 -0
- package/bin/skills/document-skills/pdf/scripts/check_bounding_boxes.py +70 -0
- package/bin/skills/document-skills/pdf/scripts/check_bounding_boxes_test.py +226 -0
- package/bin/skills/document-skills/pdf/scripts/check_fillable_fields.py +12 -0
- package/bin/skills/document-skills/pdf/scripts/convert_pdf_to_images.py +35 -0
- package/bin/skills/document-skills/pdf/scripts/create_validation_image.py +41 -0
- package/bin/skills/document-skills/pdf/scripts/extract_form_field_info.py +152 -0
- package/bin/skills/document-skills/pdf/scripts/fill_fillable_fields.py +114 -0
- package/bin/skills/document-skills/pdf/scripts/fill_pdf_form_with_annotations.py +108 -0
- package/bin/skills/document-skills/pptx/LICENSE.txt +30 -0
- package/bin/skills/document-skills/pptx/SKILL.md +520 -0
- package/bin/skills/document-skills/pptx/html2pptx.md +625 -0
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## Overview
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Beyond patent search, PEDS, and trademarks, USPTO provides specialized APIs for citations, office actions, assignments, litigation, and other patent data.
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## 1. Enriched Citation API
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### Overview
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Provides insights into patent evaluation processes and cited references for the IP5 (USPTO, EPO, JPO, KIPO, CNIPA) and public use.
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Analyze which references examiners cite during patent examination and how patents cite prior art.
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### 2.1 Office Action Text Retrieval API
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### Purpose
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Retrieves complete full-text office action correspondence documents for patent applications.
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+
- Examiner amendments
|
|
50
|
+
- Search information
|
|
51
|
+
|
|
52
|
+
### Example Use
|
|
53
|
+
|
|
54
|
+
```python
|
|
55
|
+
# Retrieve office action text by application number
|
|
56
|
+
def get_office_action_text(app_number, api_key):
|
|
57
|
+
"""
|
|
58
|
+
Fetch full text of office actions for an application.
|
|
59
|
+
Note: Integrate with PEDS to identify which office actions exist.
|
|
60
|
+
"""
|
|
61
|
+
# API implementation
|
|
62
|
+
pass
|
|
63
|
+
```
|
|
64
|
+
|
|
65
|
+
### 2.2 Office Action Citations API
|
|
66
|
+
|
|
67
|
+
**Versions:** v2, beta v1
|
|
68
|
+
|
|
69
|
+
### Purpose
|
|
70
|
+
|
|
71
|
+
Provides patent citation data extracted from office actions, showing which references examiners used during examination.
|
|
72
|
+
|
|
73
|
+
### Key Data
|
|
74
|
+
|
|
75
|
+
- Patent and non-patent literature citations
|
|
76
|
+
- Citation context (rejection, information, etc.)
|
|
77
|
+
- Examiner search strategies
|
|
78
|
+
- Prosecution research dataset
|
|
79
|
+
|
|
80
|
+
### 2.3 Office Action Rejection API
|
|
81
|
+
|
|
82
|
+
**Versions:** v2, beta v1
|
|
83
|
+
|
|
84
|
+
### Purpose
|
|
85
|
+
|
|
86
|
+
Details rejection reasons and examination outcomes with bulk rejection data through March 2025.
|
|
87
|
+
|
|
88
|
+
### Rejection Types
|
|
89
|
+
|
|
90
|
+
- **35 U.S.C. § 102** - Anticipation (lack of novelty)
|
|
91
|
+
- **35 U.S.C. § 103** - Obviousness
|
|
92
|
+
- **35 U.S.C. § 112** - Enablement, written description, indefiniteness
|
|
93
|
+
- **35 U.S.C. § 101** - Subject matter eligibility
|
|
94
|
+
|
|
95
|
+
### Use Cases
|
|
96
|
+
|
|
97
|
+
- Analyze common rejection reasons
|
|
98
|
+
- Identify problematic claim language
|
|
99
|
+
- Prepare responses based on historical data
|
|
100
|
+
- Portfolio analysis of rejection patterns
|
|
101
|
+
|
|
102
|
+
### 2.4 Office Action Weekly Zips API
|
|
103
|
+
|
|
104
|
+
**Version:** v1
|
|
105
|
+
|
|
106
|
+
### Purpose
|
|
107
|
+
|
|
108
|
+
Delivers bulk downloads of full-text office action documents organized by weekly release schedules.
|
|
109
|
+
|
|
110
|
+
### Features
|
|
111
|
+
|
|
112
|
+
- Weekly archive downloads
|
|
113
|
+
- Complete office action text
|
|
114
|
+
- Bulk access for large-scale analysis
|
|
115
|
+
|
|
116
|
+
## 3. Patent Assignment Search API
|
|
117
|
+
|
|
118
|
+
### Overview
|
|
119
|
+
|
|
120
|
+
**Version:** v1.4
|
|
121
|
+
|
|
122
|
+
Accesses USPTO patent assignment database for ownership records and transfers.
|
|
123
|
+
|
|
124
|
+
**Base URL:** `https://assignment-api.uspto.gov/patent/`
|
|
125
|
+
|
|
126
|
+
### Purpose
|
|
127
|
+
|
|
128
|
+
Track patent ownership, assignments, security interests, and corporate transactions.
|
|
129
|
+
|
|
130
|
+
### Search Methods
|
|
131
|
+
|
|
132
|
+
#### By Patent Number
|
|
133
|
+
|
|
134
|
+
```
|
|
135
|
+
GET /v1.4/assignment/patent/{patent_number}
|
|
136
|
+
```
|
|
137
|
+
|
|
138
|
+
#### By Application Number
|
|
139
|
+
|
|
140
|
+
```
|
|
141
|
+
GET /v1.4/assignment/application/{application_number}
|
|
142
|
+
```
|
|
143
|
+
|
|
144
|
+
#### By Assignee Name
|
|
145
|
+
|
|
146
|
+
```
|
|
147
|
+
POST /v1.4/assignment/search
|
|
148
|
+
{
|
|
149
|
+
"criteria": {
|
|
150
|
+
"assigneeName": "Company Name"
|
|
151
|
+
}
|
|
152
|
+
}
|
|
153
|
+
```
|
|
154
|
+
|
|
155
|
+
### Response Format
|
|
156
|
+
|
|
157
|
+
Returns XML with assignment records similar to trademark assignments:
|
|
158
|
+
|
|
159
|
+
- Reel/frame numbers
|
|
160
|
+
- Conveyance type
|
|
161
|
+
- Dates (execution and recorded)
|
|
162
|
+
- Assignors and assignees
|
|
163
|
+
- Affected patents/applications
|
|
164
|
+
|
|
165
|
+
### Common Uses
|
|
166
|
+
|
|
167
|
+
```python
|
|
168
|
+
def track_patent_ownership(patent_number, api_key):
|
|
169
|
+
"""Track ownership history of a patent."""
|
|
170
|
+
url = f"https://assignment-api.uspto.gov/patent/v1.4/assignment/patent/{patent_number}"
|
|
171
|
+
headers = {"X-Api-Key": api_key}
|
|
172
|
+
|
|
173
|
+
response = requests.get(url, headers=headers)
|
|
174
|
+
if response.status_code == 200:
|
|
175
|
+
# Parse XML to extract assignment history
|
|
176
|
+
return response.text
|
|
177
|
+
return None
|
|
178
|
+
|
|
179
|
+
def find_company_patents(company_name, api_key):
|
|
180
|
+
"""Find patents assigned to a company."""
|
|
181
|
+
url = "https://assignment-api.uspto.gov/patent/v1.4/assignment/search"
|
|
182
|
+
headers = {"X-Api-Key": api_key}
|
|
183
|
+
data = {"criteria": {"assigneeName": company_name}}
|
|
184
|
+
|
|
185
|
+
response = requests.post(url, headers=headers, json=data)
|
|
186
|
+
return response.text
|
|
187
|
+
```
|
|
188
|
+
|
|
189
|
+
## 4. PTAB API (Patent Trial and Appeal Board)
|
|
190
|
+
|
|
191
|
+
### Overview
|
|
192
|
+
|
|
193
|
+
**Version:** v2
|
|
194
|
+
|
|
195
|
+
Access to Patent Trial and Appeal Board proceedings data.
|
|
196
|
+
|
|
197
|
+
### Purpose
|
|
198
|
+
|
|
199
|
+
Retrieve information about:
|
|
200
|
+
- Inter partes review (IPR)
|
|
201
|
+
- Post-grant review (PGR)
|
|
202
|
+
- Covered business method (CBM) review
|
|
203
|
+
- Ex parte appeals
|
|
204
|
+
|
|
205
|
+
### Data Available
|
|
206
|
+
|
|
207
|
+
- Petition information
|
|
208
|
+
- Trial decisions
|
|
209
|
+
- Final written decisions
|
|
210
|
+
- Petitioner and patent owner information
|
|
211
|
+
- Claims challenged
|
|
212
|
+
- Trial outcomes
|
|
213
|
+
|
|
214
|
+
### Note
|
|
215
|
+
|
|
216
|
+
Currently migrating to new Open Data Portal. Check current documentation for access details.
|
|
217
|
+
|
|
218
|
+
## 5. Patent Litigation Cases API
|
|
219
|
+
|
|
220
|
+
### Overview
|
|
221
|
+
|
|
222
|
+
**Version:** v1
|
|
223
|
+
|
|
224
|
+
Contains 74,623+ district court litigation records covering patent litigation data.
|
|
225
|
+
|
|
226
|
+
### Purpose
|
|
227
|
+
|
|
228
|
+
Access federal district court patent infringement cases.
|
|
229
|
+
|
|
230
|
+
### Key Data
|
|
231
|
+
|
|
232
|
+
- Case numbers and filing dates
|
|
233
|
+
- Patents asserted
|
|
234
|
+
- Parties (plaintiffs and defendants)
|
|
235
|
+
- Venues
|
|
236
|
+
- Case outcomes
|
|
237
|
+
|
|
238
|
+
### Use Cases
|
|
239
|
+
|
|
240
|
+
- Litigation risk analysis
|
|
241
|
+
- Identify frequently litigated patents
|
|
242
|
+
- Track litigation trends
|
|
243
|
+
- Analyze venue preferences
|
|
244
|
+
- Assess patent enforcement patterns
|
|
245
|
+
|
|
246
|
+
## 6. Cancer Moonshot Patent Data Set API
|
|
247
|
+
|
|
248
|
+
### Overview
|
|
249
|
+
|
|
250
|
+
**Version:** v1.0.1
|
|
251
|
+
|
|
252
|
+
Specialized dataset for cancer-related patent discoveries.
|
|
253
|
+
|
|
254
|
+
### Purpose
|
|
255
|
+
|
|
256
|
+
Search and download patents related to cancer research, treatment, and diagnostics.
|
|
257
|
+
|
|
258
|
+
### Features
|
|
259
|
+
|
|
260
|
+
- Curated cancer-related patents
|
|
261
|
+
- Bulk data download
|
|
262
|
+
- Classification by cancer type
|
|
263
|
+
- Treatment modality categorization
|
|
264
|
+
|
|
265
|
+
### Use Cases
|
|
266
|
+
|
|
267
|
+
- Cancer research prior art
|
|
268
|
+
- Technology landscape analysis
|
|
269
|
+
- Identify research trends
|
|
270
|
+
- Licensing opportunities
|
|
271
|
+
|
|
272
|
+
## 7. OCE Patent Examination Status/Event Codes APIs
|
|
273
|
+
|
|
274
|
+
### Overview
|
|
275
|
+
|
|
276
|
+
**Version:** v1
|
|
277
|
+
|
|
278
|
+
Provides official descriptions of USPTO status and event codes used in patent examination.
|
|
279
|
+
|
|
280
|
+
### Purpose
|
|
281
|
+
|
|
282
|
+
Decode transaction codes and status codes found in PEDS and other examination data.
|
|
283
|
+
|
|
284
|
+
### Data Provided
|
|
285
|
+
|
|
286
|
+
- **Status codes** - Application status descriptions
|
|
287
|
+
- **Event codes** - Transaction/event descriptions
|
|
288
|
+
- **Code definitions** - Official meanings
|
|
289
|
+
|
|
290
|
+
### Integration
|
|
291
|
+
|
|
292
|
+
Use with PEDS data to interpret transaction codes:
|
|
293
|
+
|
|
294
|
+
```python
|
|
295
|
+
def get_code_description(code, api_key):
|
|
296
|
+
"""Get human-readable description of USPTO code."""
|
|
297
|
+
# Fetch from OCE API
|
|
298
|
+
pass
|
|
299
|
+
|
|
300
|
+
def enrich_peds_data(peds_transactions, api_key):
|
|
301
|
+
"""Add descriptions to PEDS transaction codes."""
|
|
302
|
+
for trans in peds_transactions:
|
|
303
|
+
trans['description'] = get_code_description(trans['code'], api_key)
|
|
304
|
+
return peds_transactions
|
|
305
|
+
```
|
|
306
|
+
|
|
307
|
+
## API Integration Patterns
|
|
308
|
+
|
|
309
|
+
### Combined Workflow Example
|
|
310
|
+
|
|
311
|
+
```python
|
|
312
|
+
def comprehensive_patent_analysis(patent_number, api_key):
|
|
313
|
+
"""
|
|
314
|
+
Comprehensive analysis combining multiple APIs.
|
|
315
|
+
"""
|
|
316
|
+
results = {}
|
|
317
|
+
|
|
318
|
+
# 1. Get patent details from PatentSearch
|
|
319
|
+
results['patent_data'] = search_patent(patent_number, api_key)
|
|
320
|
+
|
|
321
|
+
# 2. Get examination history from PEDS
|
|
322
|
+
results['prosecution'] = get_peds_data(patent_number, api_key)
|
|
323
|
+
|
|
324
|
+
# 3. Get assignment history
|
|
325
|
+
results['assignments'] = get_assignments(patent_number, api_key)
|
|
326
|
+
|
|
327
|
+
# 4. Get citation data
|
|
328
|
+
results['citations'] = get_citations(patent_number, api_key)
|
|
329
|
+
|
|
330
|
+
# 5. Check litigation history
|
|
331
|
+
results['litigation'] = get_litigation(patent_number, api_key)
|
|
332
|
+
|
|
333
|
+
# 6. Get PTAB challenges
|
|
334
|
+
results['ptab'] = get_ptab_proceedings(patent_number, api_key)
|
|
335
|
+
|
|
336
|
+
return results
|
|
337
|
+
```
|
|
338
|
+
|
|
339
|
+
### Portfolio Analysis Example
|
|
340
|
+
|
|
341
|
+
```python
|
|
342
|
+
def analyze_company_portfolio(company_name, api_key):
|
|
343
|
+
"""
|
|
344
|
+
Analyze a company's patent portfolio using multiple APIs.
|
|
345
|
+
"""
|
|
346
|
+
# 1. Find all assigned patents
|
|
347
|
+
assignments = find_company_patents(company_name, api_key)
|
|
348
|
+
patent_numbers = extract_patent_numbers(assignments)
|
|
349
|
+
|
|
350
|
+
# 2. Get details for each patent
|
|
351
|
+
portfolio = []
|
|
352
|
+
for patent_num in patent_numbers:
|
|
353
|
+
patent_data = {
|
|
354
|
+
'number': patent_num,
|
|
355
|
+
'details': search_patent(patent_num, api_key),
|
|
356
|
+
'citations': get_citations(patent_num, api_key),
|
|
357
|
+
'litigation': get_litigation(patent_num, api_key)
|
|
358
|
+
}
|
|
359
|
+
portfolio.append(patent_data)
|
|
360
|
+
|
|
361
|
+
# 3. Aggregate statistics
|
|
362
|
+
stats = {
|
|
363
|
+
'total_patents': len(portfolio),
|
|
364
|
+
'cited_by_count': sum(len(p['citations']) for p in portfolio),
|
|
365
|
+
'litigated_count': sum(1 for p in portfolio if p['litigation']),
|
|
366
|
+
'technology_areas': aggregate_tech_areas(portfolio)
|
|
367
|
+
}
|
|
368
|
+
|
|
369
|
+
return {'portfolio': portfolio, 'statistics': stats}
|
|
370
|
+
```
|
|
371
|
+
|
|
372
|
+
## Best Practices
|
|
373
|
+
|
|
374
|
+
1. **API Key Management** - Use environment variables, never hardcode
|
|
375
|
+
2. **Rate Limiting** - Implement exponential backoff for all APIs
|
|
376
|
+
3. **Caching** - Cache API responses to minimize redundant calls
|
|
377
|
+
4. **Error Handling** - Gracefully handle API errors and missing data
|
|
378
|
+
5. **Data Validation** - Validate input formats before API calls
|
|
379
|
+
6. **Combining APIs** - Use appropriate APIs together for comprehensive analysis
|
|
380
|
+
7. **Documentation** - Keep track of API versions and changes
|
|
381
|
+
|
|
382
|
+
## API Key Registration
|
|
383
|
+
|
|
384
|
+
All APIs require registration at:
|
|
385
|
+
**https://account.uspto.gov/api-manager/**
|
|
386
|
+
|
|
387
|
+
Single API key works across most USPTO APIs.
|
|
388
|
+
|
|
389
|
+
## Resources
|
|
390
|
+
|
|
391
|
+
- **Developer Portal**: https://developer.uspto.gov/
|
|
392
|
+
- **Open Data Portal**: https://data.uspto.gov/
|
|
393
|
+
- **API Catalog**: https://developer.uspto.gov/api-catalog
|
|
394
|
+
- **Swagger Docs**: Available for individual APIs
|
|
@@ -0,0 +1,266 @@
|
|
|
1
|
+
# PatentSearch API Reference
|
|
2
|
+
|
|
3
|
+
## Overview
|
|
4
|
+
|
|
5
|
+
The PatentSearch API is USPTO's modern ElasticSearch-based patent search system that replaced the legacy PatentsView API in May 2025. It provides access to patent data through June 30, 2025, with regular updates.
|
|
6
|
+
|
|
7
|
+
**Base URL:** `https://search.patentsview.org/api/v1/`
|
|
8
|
+
|
|
9
|
+
## Authentication
|
|
10
|
+
|
|
11
|
+
All API requests require authentication using an API key in the request header:
|
|
12
|
+
|
|
13
|
+
```
|
|
14
|
+
X-Api-Key: YOUR_API_KEY
|
|
15
|
+
```
|
|
16
|
+
|
|
17
|
+
Register for an API key at: https://account.uspto.gov/api-manager/
|
|
18
|
+
|
|
19
|
+
## Rate Limits
|
|
20
|
+
|
|
21
|
+
- **45 requests per minute** per API key
|
|
22
|
+
- Exceeding rate limits results in HTTP 429 errors
|
|
23
|
+
|
|
24
|
+
## Available Endpoints
|
|
25
|
+
|
|
26
|
+
### Core Patent & Publication Endpoints
|
|
27
|
+
|
|
28
|
+
- **`/patent`** - General patent data (granted patents)
|
|
29
|
+
- **`/publication`** - Pregrant publication data
|
|
30
|
+
- **`/publication/rel_app_text`** - Related application data for publications
|
|
31
|
+
|
|
32
|
+
### Entity Endpoints
|
|
33
|
+
|
|
34
|
+
- **`/inventor`** - Inventor information with location and gender code fields
|
|
35
|
+
- **`/assignee`** - Assignee details with location identifiers
|
|
36
|
+
- **`/location`** - Geographic data including latitude/longitude coordinates
|
|
37
|
+
- **`/attorney`** - Legal representative information
|
|
38
|
+
|
|
39
|
+
### Classification Endpoints
|
|
40
|
+
|
|
41
|
+
- **`/cpc_subclass`** - Cooperative Patent Classification at subclass level
|
|
42
|
+
- **`/cpc_at_issue`** - CPC classification as of patent issue date
|
|
43
|
+
- **`/uspc`** - US Patent Classification data
|
|
44
|
+
- **`/wipo`** - World Intellectual Property Organization classifications
|
|
45
|
+
- **`/ipc`** - International Patent Classification
|
|
46
|
+
|
|
47
|
+
### Text Data Endpoints (Beta)
|
|
48
|
+
|
|
49
|
+
- **`/brief_summary_text`** - Patent brief summaries (granted and pre-grant)
|
|
50
|
+
- **`/claims`** - Patent claims text
|
|
51
|
+
- **`/drawing_description_text`** - Drawing descriptions
|
|
52
|
+
- **`/detail_description_text`** - Detailed description text
|
|
53
|
+
|
|
54
|
+
*Note: Text endpoints are in beta with data primarily from 2023 onward. Historical backfilling is in progress.*
|
|
55
|
+
|
|
56
|
+
### Supporting Endpoints
|
|
57
|
+
|
|
58
|
+
- **`/other_reference`** - Patent reference materials
|
|
59
|
+
- **`/related_document`** - Cross-references between patents
|
|
60
|
+
|
|
61
|
+
## Query Parameters
|
|
62
|
+
|
|
63
|
+
All endpoints support four main parameters:
|
|
64
|
+
|
|
65
|
+
### 1. Query String (`q`)
|
|
66
|
+
|
|
67
|
+
Filters data using JSON query objects. **Required parameter.**
|
|
68
|
+
|
|
69
|
+
**Query Operators:**
|
|
70
|
+
|
|
71
|
+
- **Equality**: `{"field": "value"}` or `{"field": {"_eq": "value"}}`
|
|
72
|
+
- **Not equal**: `{"field": {"_neq": "value"}}`
|
|
73
|
+
- **Comparison**: `_gt`, `_gte`, `_lt`, `_lte`
|
|
74
|
+
- **String matching**:
|
|
75
|
+
- `_begins` - starts with
|
|
76
|
+
- `_contains` - substring match
|
|
77
|
+
- **Full-text search** (recommended for text fields):
|
|
78
|
+
- `_text_all` - all terms must match
|
|
79
|
+
- `_text_any` - any term matches
|
|
80
|
+
- `_text_phrase` - exact phrase match
|
|
81
|
+
- **Logical operators**: `_and`, `_or`, `_not`
|
|
82
|
+
- **Array matching**: Use arrays for OR conditions
|
|
83
|
+
|
|
84
|
+
**Examples:**
|
|
85
|
+
|
|
86
|
+
```json
|
|
87
|
+
// Simple equality
|
|
88
|
+
{"patent_number": "11234567"}
|
|
89
|
+
|
|
90
|
+
// Date range
|
|
91
|
+
{"patent_date": {"_gte": "2020-01-01", "_lte": "2020-12-31"}}
|
|
92
|
+
|
|
93
|
+
// Text search (preferred for text fields)
|
|
94
|
+
{"patent_abstract": {"_text_all": ["machine", "learning"]}}
|
|
95
|
+
|
|
96
|
+
// Inventor name
|
|
97
|
+
{"inventor_name": {"_text_phrase": "John Smith"}}
|
|
98
|
+
|
|
99
|
+
// Complex query with logical operators
|
|
100
|
+
{
|
|
101
|
+
"_and": [
|
|
102
|
+
{"patent_date": {"_gte": "2020-01-01"}},
|
|
103
|
+
{"assignee_organization": {"_text_any": ["Google", "Alphabet"]}}
|
|
104
|
+
]
|
|
105
|
+
}
|
|
106
|
+
|
|
107
|
+
// Array for OR conditions
|
|
108
|
+
{"cpc_subclass_id": ["H04N", "H04L"]}
|
|
109
|
+
```
|
|
110
|
+
|
|
111
|
+
### 2. Field List (`f`)
|
|
112
|
+
|
|
113
|
+
Specifies which fields to return in the response. Optional - each endpoint has default fields.
|
|
114
|
+
|
|
115
|
+
**Format:** JSON array of field names
|
|
116
|
+
|
|
117
|
+
```json
|
|
118
|
+
["patent_number", "patent_title", "patent_date", "inventor_name"]
|
|
119
|
+
```
|
|
120
|
+
|
|
121
|
+
### 3. Sorting (`s`)
|
|
122
|
+
|
|
123
|
+
Orders results by specified fields. Optional.
|
|
124
|
+
|
|
125
|
+
**Format:** JSON array with field name and direction
|
|
126
|
+
|
|
127
|
+
```json
|
|
128
|
+
[{"patent_date": "desc"}]
|
|
129
|
+
```
|
|
130
|
+
|
|
131
|
+
### 4. Options (`o`)
|
|
132
|
+
|
|
133
|
+
Controls pagination and additional settings. Optional.
|
|
134
|
+
|
|
135
|
+
**Available options:**
|
|
136
|
+
|
|
137
|
+
- `page` - Page number (default: 1)
|
|
138
|
+
- `per_page` - Records per page (default: 100, max: 1,000)
|
|
139
|
+
- `pad_patent_id` - Pad patent IDs with leading zeros (default: false)
|
|
140
|
+
- `exclude_withdrawn` - Exclude withdrawn patents (default: true)
|
|
141
|
+
|
|
142
|
+
**Format:** JSON object
|
|
143
|
+
|
|
144
|
+
```json
|
|
145
|
+
{
|
|
146
|
+
"page": 1,
|
|
147
|
+
"per_page": 500,
|
|
148
|
+
"exclude_withdrawn": false
|
|
149
|
+
}
|
|
150
|
+
```
|
|
151
|
+
|
|
152
|
+
## Response Format
|
|
153
|
+
|
|
154
|
+
All responses follow this structure:
|
|
155
|
+
|
|
156
|
+
```json
|
|
157
|
+
{
|
|
158
|
+
"error": false,
|
|
159
|
+
"count": 100,
|
|
160
|
+
"total_hits": 5432,
|
|
161
|
+
"patents": [...],
|
|
162
|
+
// or "inventors": [...], "assignees": [...], etc.
|
|
163
|
+
}
|
|
164
|
+
```
|
|
165
|
+
|
|
166
|
+
- `error` - Boolean indicating if an error occurred
|
|
167
|
+
- `count` - Number of records in current response
|
|
168
|
+
- `total_hits` - Total number of matching records
|
|
169
|
+
- Endpoint-specific data array (e.g., `patents`, `inventors`)
|
|
170
|
+
|
|
171
|
+
## Complete Request Example
|
|
172
|
+
|
|
173
|
+
### Using curl
|
|
174
|
+
|
|
175
|
+
```bash
|
|
176
|
+
curl -X POST "https://search.patentsview.org/api/v1/patent" \
|
|
177
|
+
-H "X-Api-Key: YOUR_API_KEY" \
|
|
178
|
+
-H "Content-Type: application/json" \
|
|
179
|
+
-d '{
|
|
180
|
+
"q": {
|
|
181
|
+
"_and": [
|
|
182
|
+
{"patent_date": {"_gte": "2024-01-01"}},
|
|
183
|
+
{"patent_abstract": {"_text_all": ["artificial", "intelligence"]}}
|
|
184
|
+
]
|
|
185
|
+
},
|
|
186
|
+
"f": ["patent_number", "patent_title", "patent_date", "assignee_organization"],
|
|
187
|
+
"s": [{"patent_date": "desc"}],
|
|
188
|
+
"o": {"per_page": 100}
|
|
189
|
+
}'
|
|
190
|
+
```
|
|
191
|
+
|
|
192
|
+
### Using Python
|
|
193
|
+
|
|
194
|
+
```python
|
|
195
|
+
import requests
|
|
196
|
+
|
|
197
|
+
url = "https://search.patentsview.org/api/v1/patent"
|
|
198
|
+
headers = {
|
|
199
|
+
"X-Api-Key": "YOUR_API_KEY",
|
|
200
|
+
"Content-Type": "application/json"
|
|
201
|
+
}
|
|
202
|
+
data = {
|
|
203
|
+
"q": {
|
|
204
|
+
"_and": [
|
|
205
|
+
{"patent_date": {"_gte": "2024-01-01"}},
|
|
206
|
+
{"patent_abstract": {"_text_all": ["artificial", "intelligence"]}}
|
|
207
|
+
]
|
|
208
|
+
},
|
|
209
|
+
"f": ["patent_number", "patent_title", "patent_date", "assignee_organization"],
|
|
210
|
+
"s": [{"patent_date": "desc"}],
|
|
211
|
+
"o": {"per_page": 100}
|
|
212
|
+
}
|
|
213
|
+
|
|
214
|
+
response = requests.post(url, headers=headers, json=data)
|
|
215
|
+
results = response.json()
|
|
216
|
+
```
|
|
217
|
+
|
|
218
|
+
## Common Field Names
|
|
219
|
+
|
|
220
|
+
### Patent Endpoint Fields
|
|
221
|
+
|
|
222
|
+
- `patent_number` - Patent number
|
|
223
|
+
- `patent_title` - Title of the patent
|
|
224
|
+
- `patent_date` - Grant date
|
|
225
|
+
- `patent_abstract` - Abstract text
|
|
226
|
+
- `patent_type` - Type of patent
|
|
227
|
+
- `inventor_name` - Inventor names (array)
|
|
228
|
+
- `assignee_organization` - Assignee company names (array)
|
|
229
|
+
- `cpc_subclass_id` - CPC classification codes
|
|
230
|
+
- `uspc_class` - US classification codes
|
|
231
|
+
- `cited_patent_number` - Citations to other patents
|
|
232
|
+
- `citedby_patent_number` - Patents citing this patent
|
|
233
|
+
|
|
234
|
+
Refer to the full field dictionary at: https://search.patentsview.org/docs/
|
|
235
|
+
|
|
236
|
+
## Best Practices
|
|
237
|
+
|
|
238
|
+
1. **Use `_text*` operators for text fields** - More performant than `_contains` or `_begins`
|
|
239
|
+
2. **Request only needed fields** - Reduces response size and improves performance
|
|
240
|
+
3. **Implement pagination** - Handle large result sets efficiently
|
|
241
|
+
4. **Respect rate limits** - Implement backoff/retry logic for 429 errors
|
|
242
|
+
5. **Cache results** - Reduce redundant API calls
|
|
243
|
+
6. **Use date ranges** - Narrow searches to improve performance
|
|
244
|
+
|
|
245
|
+
## Error Handling
|
|
246
|
+
|
|
247
|
+
Common HTTP status codes:
|
|
248
|
+
|
|
249
|
+
- **200** - Success
|
|
250
|
+
- **400** - Bad request (invalid query syntax)
|
|
251
|
+
- **401** - Unauthorized (missing or invalid API key)
|
|
252
|
+
- **429** - Too many requests (rate limit exceeded)
|
|
253
|
+
- **500** - Server error
|
|
254
|
+
|
|
255
|
+
## Recent Updates (February 2025)
|
|
256
|
+
|
|
257
|
+
- Data updated through December 31, 2024
|
|
258
|
+
- New `pad_patent_id` option for formatting patent IDs
|
|
259
|
+
- New `exclude_withdrawn` option to show withdrawn patents
|
|
260
|
+
- Text endpoints continue beta backfilling
|
|
261
|
+
|
|
262
|
+
## Resources
|
|
263
|
+
|
|
264
|
+
- **Official Documentation**: https://search.patentsview.org/docs/
|
|
265
|
+
- **API Key Registration**: https://account.uspto.gov/api-manager/
|
|
266
|
+
- **Legacy API Notice**: The old PatentsView API was discontinued May 1, 2025
|