Merge branch 'main' into main

Author: theEBH

datasets/brazil-data-cubes.yaml

@@ -4,6 +4,7 @@ Documentation: http://brazildatacube.org/en/home-page-2/
 Contact: [email protected]
 ManagedBy: "[INPE - Brazil Data Cube](http://brazildatacube.org/)"
 UpdateFrequency: New EO data cubes are added as soon as there are produced by the Brazil Data Cube project.
+DeprecatedNotice: This dataset is deprecated and will be removed from AWS Open Data in the near future. If you have any questions or require assistance, please contact us at [[email protected]].
 Tags:
   - earth observation
   - satellite imagery
@@ -71,4 +72,4 @@ DataAtWork:
       AuthorName: K. R. Ferreira, et al.
     - Title: Building Earth Observation Data Cubes on AWS
       URL: https://www.proquest.com/openview/070d2a753cc88d26535c98293171a5ac/1?
-      AuthorName: Ferreira, K R; Queiroz, G R; Marujo, R F B; Costa, R W.  
+      AuthorName: Ferreira, K R; Queiroz, G R; Marujo, R F B; Costa, R W. 

datasets/broad-references.yaml

@@ -30,10 +30,6 @@ DataAtWork:
       - AWS Batch
       - Amazon FSx
   Tools & Applications:
-    - Title: Genomics Workflows on AWS - Cromwell on AWS
-      URL: https://docs.opendata.aws/genomics-workflows/orchestration/cromwell/cromwell-examples/#real-world-example-haplotypecaller
-      AuthorName: W. Lee Pang
-      AuthorURL: https://www.linkedin.com/in/lee-pang-a039a26/
   Publications:
     - Title: Advancing NGS quality control to enable measurement of actionable mutations in circulating tumor DNA
       URL: https://www.cell.com/cell-reports-methods/pdf/S2667-2375(21)00165-X.pdf

datasets/colorado-imagery.yaml

@@ -0,0 +1,30 @@
+Name: State of Colorado Imagery
+Description: The State of Colorado has gathered public historical imagery ranging from 2005 to 2021.
+Documentation: https://docs.google.com/document/d/1YDHignUj9lQTMw2J-SqA96MTP8KmJYtk2ZKKC2ZYuPE/edit?usp=sharing
+Contact: [email protected]
+ManagedBy: State of Colorado Governor's Office of Information Technology (OIT) GIS team
+UpdateFrequency: Periodically
+Tags:
+  - aws-pds
+  - aerial imagery
+  - geospatial
+  - imaging
+  - mapping 
+License: https://creativecommons.org/publicdomain/zero/1.0/legalcode
+Resources:
+  - Description: The State of Colorado historic public aerial imagery. Currently, NAIP is available from 2005 and 2009-2021. The National Agriculture Imagery Program is a project managed by the U.S. Department of Agriculture created to collect leaf-on imagery for the United States during peak growing seasons. The files are available as GeoTIFFs. From 2005-2017 they have a one meter resolution. After that, it is a 60cm resolution.
+    Region: us-east-1
+    Type: S3 Bucket
+DataAtWork:
+  Tutorials:
+    - Title: Colorado AWS Open Imagery Guide
+      URL: https://docs.google.com/document/d/15GjCSWSzst82FZMqBqdGV0rt6FKJzt03NlQYdWwsLGE/edit?usp=sharing
+      AuthorName: State of Colorado OIT-GIS
+      AuthorURL: https://geodata.colorado.gov/
+  Tools & Applications:
+    - Title: Colorado Public Imagery Dowloader
+      URL: https://gis.colorado.gov/imagery/
+      AuthorName: State of Colorado OIT-GIS
+      AuthorURL: https://geodata.colorado.gov/
+ADXCategories:
+  - Public Sector Data

datasets/ctrees-amazon-canopy-height.yaml

@@ -0,0 +1,39 @@
+Name: Canopy Tree Height maps for the Amazon Forest (mean height composite 2020-2024) by CTrees.org
+Description: |
+  Mean canopy Tree Height for the Amazon Forest on the period 2020-2024 at 4.78 m of spatial resolution. Created using a deep learning model on high-resolution Planet imagery from the Norway's International Climate and Forest Initiative (NICFI) Satellite Data Program.
+Documentation: "[Project overview](https://ctrees.org/products/tree-level)"
+Contact: [email protected]
+ManagedBy: "[CTrees](https://ctrees.org/)"
+UpdateFrequency: TBD
+Tags:
+  - aws-pds
+  - cog
+  - earth observation
+  - land cover
+  - deep learning
+  - lidar
+  - satellite imagery
+  - image processing
+  - environmental
+  - conservation
+  - geospatial
+License: |
+  https://creativecommons.org/licenses/by/4.0/
+Citation: CTrees.org - 2025. Canopy Tree Height of the Amazon Forest. Accessed DAY MONTH YEAR.
+Resources:
+  - Description: Cloud-optimized GeoTIFF files with names corresponding to the tiling system of the Norway's International Climate and Forest Initiative (NICFI) Satellite Data Program.
+    ARN: arn:aws:s3:::ctrees-amazon-canopy-height
+    Region: us-west-2
+    Type: S3 Bucket
+    Explore:
+      - "[Browse CTrees Bucket](https://ctrees-amazon-canopy-height.s3.us-west-2.amazonaws.com/index.html)"
+DataAtWork:
+  Tutorials:
+  Tools & Applications:
+  Publications:
+    - Title: "Is this the largest tree in the Amazon? A Q&A with CTrees scientist Fabien Wagner"
+      URL: https://ctrees.org/news/largest-tree-amazon-with-fabien-wagner-63
+      AuthorName: Rachel Kovinsky
+    - Title: "High Resolution Tree Height Mapping of the Amazon Forest using Planet NICFI Images and LiDAR-Informed U-Net Model"
+      URL: https://doi.org/10.48550/arXiv.2501.10600
+      AuthorName: Fabien H Wagner, Ricardo Dalagnol, Griffin Carter, Mayumi CM Hirye, Shivraj Gill, Le Bienfaiteur Sagang Takougoum, Samuel Favrichon, Michael Keller, Jean PHB Ometto, Lorena Alves, Cynthia Creze, Stephanie P George-Chacon, Shuang Li, Zhihua Liu, Adugna Mullissa, Yan Yang, Erone G Santos, Sarah R Worden, Martin Brandt, Philippe Ciais, Stephen C Hagen, Sassan Saatchi

datasets/ctrees-california-vhr-tree-height.yaml

@@ -1,6 +1,6 @@
 Name: Sub-Meter Canopy Tree Height of California in 2020 by CTrees.org
 Description: |
-  Canopy Tree Height maps for California in 2020. Created using a deep learning model on very-high-resolution airborne imagery from the National Agriculture Imagery Program (NAIP) by United States Department of Agriculture (USDA). 
+  Canopy Tree Height maps for California in 2020. Created using a deep learning model on very-high-resolution airborne imagery from the National Agriculture Imagery Program (NAIP) by United States Department of Agriculture (USDA).
 Documentation: "[Project overview](https://ctrees.org/products/tree-level)"
 Contact: [email protected]
 ManagedBy: "[CTrees](https://ctrees.org/)"
@@ -18,13 +18,14 @@ Tags:
   - geospatial
 License: |
   https://creativecommons.org/licenses/by/4.0/
-Citation:
-  CTrees.org - 2024. Sub-Meter Canopy Tree Height of California. Accessed DAY MONTH YEAR.
+Citation: CTrees.org - 2024. Sub-Meter Canopy Tree Height of California. Accessed DAY MONTH YEAR.
 Resources:
   - Description: Cloud-optimized GeoTIFF files with names corresponding to image of California for the year 2020 from the National Agriculture Imagery Program (NAIP) - United States Department of Agriculture (USDA) [NAIP](s3://naip-analytic/).
     ARN: arn:aws:s3:::ctrees-tree-height-ca-2020/
     Region: us-west-2
     Type: S3 Bucket
+    Explore:
+      - "[Browse CTrees Bucket](https://ctrees-tree-height-ca-2020.s3.us-west-2.amazonaws.com/index.html)"
 DataAtWork:
   Tutorials:
   Tools & Applications:
@@ -35,4 +36,3 @@ DataAtWork:
     - Title: Sub-Meter Tree Height Mapping of California using Aerial Images and LiDAR-Informed U-Net Model
       URL: https://doi.org/10.1016/j.rse.2024.114099
       AuthorName: Fabien H Wagner, Sophia Roberts, Alison L Ritz, Griffin Carter, Ricardo Dalagnol, Samuel Favrichon, Mayumi CM Hirye, Martin Brandt, Philippe Ciais and Sassan Saatchi
- 

datasets/gatk-test-data.yaml

@@ -23,8 +23,4 @@ Resources:
 DataAtWork:
   Tutorials:
   Tools & Applications:
-    - Title: Genomics Workflows on AWS - Cromwell on AWS
-      URL: https://docs.opendata.aws/genomics-workflows/orchestration/cromwell/cromwell-examples/#real-world-example-haplotypecaller
-      AuthorName: W. Lee Pang
-      AuthorURL: https://www.linkedin.com/in/lee-pang-a039a26/
   Publications:

datasets/humancellatlas.yaml

@@ -0,0 +1,98 @@
+Name: Human Cell Atlas
+
+Description: "The Human Cell Atlas (HCA) is a collaborative community of
+  international scientists. Our mission is to create comprehensive reference
+  maps of all the cells in the human body as a basis for both understanding
+  human health and diagnosing, monitoring, and treating disease. The HCA
+  registry has more than one thousand member scientists from hundreds of
+  institutions around the world. The project is steered and governed by an
+  Organizing Committee, co-chaired by Aviv Regev and Sarah Teichmann."
+
+Documentation: https://data.humancellatlas.org/
+
+Contact: https://data.humancellatlas.org/contact
+
+ManagedBy: UC Santa Cruz Genomics Institute, University of California, Santa Cruz (UCSC)
+
+UpdateFrequency: Monthly
+
+Tags:
+  - life sciences
+  - biology
+  - cell biology
+  - genome
+  - genomic
+  - transcriptomics
+  - gene expression
+  - single-cell transcriptomics
+  - cell imaging
+  - Homo sapiens
+  - Mus musculus
+
+License: https://data.humancellatlas.org/about/data-use-agreement
+
+Citation: "The URL for the HCA Data Portal, https://data.humancellatlas.org, can
+  be used as the citation for data obtained from the HCA. Alternatively, you can
+  cite: Regev A., et al. 2017. The Human Cell Atlas. Elife. Dec 5;6. pii:
+  e27041. doi: 10.7554/eLife.27041."
+
+Resources:
+  - Description: "An S3 bucket containing all publicly accessible data files in 
+      the Human Cell Atlas. The bucket layout and access procedures are 
+      documented at
+      
+      https://github.com/DataBiosphere/azul/blob/develop/docs/mirror.rst
+      
+      and metadata can be viewed at
+      
+      https://explore.data.humancellatlas.org/
+      
+      or accessed programmatically at
+      
+      https://service.azul.data.humancellatlas.org/"
+    ARN: arn:aws:s3:::humancellatlas
+    Region: us-east-1
+    Type: S3 Bucket
+    Explore: 
+      - "[Data Browser UI](https://explore.data.humancellatlas.org/)"
+      - "[Azul REST Web Service](https://service.azul.data.humancellatlas.org/)"
+
+DataAtWork:
+  Publications:
+    - Title: "The Human Cell Atlas White Paper"
+      URL: https://arxiv.org/abs/1810.05192
+      AuthorName: "Aviv Regev, Sarah Teichmann, Orit Rozenblatt-Rosen, Michael
+        Stubbington, Kristin Ardlie, Ido Amit, Paola Arlotta, Gary Bader,
+        Christophe Benoist, Moshe Biton, Bernd Bodenmiller, Benoit Bruneau,
+        Peter Campbell, Mary Carmichael, Piero Carninci, Leslie Castelo-Soccio,
+        Menna Clatworthy, Hans Clevers, Christian Conrad, Roland Eils, Jeremy
+        Freeman, Lars Fugger, Berthold Goettgens, Daniel Graham, Anna Greka, Nir
+        Hacohen, Muzlifah Haniffa, Ingo Helbig, Robert Heuckeroth, Sekar
+        Kathiresan, Seung Kim, Allon Klein, Bartha Knoppers, Arnold Kriegstein,
+        Eric Lander, Jane Lee, Ed Lein, Sten Linnarsson, Evan Macosko, Sonya
+        MacParland, Robert Majovski, Partha Majumder, John Marioni, Ian
+        McGilvray, Miriam Merad, Musa Mhlanga, Shalin Naik, Martijn Nawijn,
+        Garry Nolan, Benedict Paten, Dana Pe'er, Anthony Philippakis, Chris
+        Ponting, Steve Quake, Jayaraj Rajagopal, Nikolaus Rajewsky, Wolf Reik,
+        Jennifer Rood, Kourosh Saeb-Parsy, Herbert Schiller, Steve Scott, Alex
+        Shalek, Ehud Shapiro, Jay Shin, Kenneth Skeldon, Michael Stratton, Jenna
+        Streicher, Henk Stunnenberg, Kai Tan, Deanne Taylor, Adrian Thorogood,
+        Ludovic Vallier, Alexander van Oudenaarden, Fiona Watt, Wilko Weicher,
+        Jonathan Weissman, Andrew Wells, Barbara Wold, Ramnik Xavier, Xiaowei
+        Zhuang, Human Cell Atlas Organizing Committee" 
+    - Title: "The network effect: studying COVID-19 pathology with the Human Cell Atlas"
+      URL: https://www.nature.com/articles/s41580-020-0267-3
+      AuthorName: "Sarah Teichmann, Aviv Regev"
+    - Title: "The Human Cell Atlas from a cell census to a unified foundation model"
+      URL: https://www.nature.com/articles/s41586-024-08338-4
+      AuthorName: "Jennifer E. Rood, Samantha Wynne, Lucia Robson, Anna
+        Hupalowska, John Randell, Sarah A. Teichmann & Aviv Regev"
+    - Title: "The Human Cell Atlas: towards a first draft atlas"
+      URL: https://www.nature.com/collections/jccbbdahji
+      AuthorName: "Various authors"
+    - Title: "The Human Cell Atlas: towards a first draft atlas"
+      URL: https://www.nature.com/immersive/d42859-024-00060-5/index.html
+      AuthorName: "Various authors"
+
+ADXCategories:
+  - Healthcare & Life Sciences Data

datasets/indian-high-court-judgments.yaml

@@ -0,0 +1,29 @@
+Name: Indian High Court Judgments
+Description: This dataset contains judgements from the Indian High Courts, downloaded from ecourts website. It contains judgments of 25 high courts, along with raw metadata (in json format) and structured metadata (in parquet format). Judgments from the website are further compressed to optimize for size (care has been taken to not have any loss of data either in content or in visual appearance). Tar files are also made available in addition to the individual pdf files to make it easier for bulk download.
+Documentation: https://github.com/vanga/indian-high-court-judgments/blob/opendata/docs/opendata/dataset.md
+Contact: [email protected]
+ManagedBy: "[Dattam Labs](https://dattam.in)"
+UpdateFrequency: Quarterly
+Tags:
+  - legal data
+License: CC-BY-4.0
+Resources:
+  - Description: S3 bucket containing the judgments
+    ARN: arn:aws:s3:::indian-high-court-judgments
+    Region: ap-south-1
+    Type: S3 Bucket
+DataAtWork:
+  Tutorials:
+    - Title: Using AWS Athena to query the metadata
+      URL: https://github.com/vanga/indian-high-court-judgments/blob/main/opendata/tutorials/athena.md
+      AuthorName: Pradeep Vanga
+      AuthorURL: https://github.com/vanga
+      Services:
+        - Amazon Athena
+    - Title: Extracting text from judgment PDFs
+      URL: https://github.com/vanga/indian-high-court-judgments/blob/main/opendata/tutorials/README.md
+      AuthorName: Pradeep Vanga
+      AuthorURL: https://github.com/vanga
+      Services:
+        - Amazon S3
+        

datasets/open-ceda.yaml

@@ -6,9 +6,14 @@ Description: |
   At its core, CEDA connects economic exchanges to GHG emissions by quantifying the life-cycle emissions of products and services. This is achieved through the integration of input-output tables, which represent the full supply-chain network of the global economy, with GHG emissions data. As a result, CEDA provides users with a powerful tool to assess the environmental impacts embedded in corporate value chains.
 Documentation: https://openceda.org/
 Contact: [email protected]
-ManagedBy: Watershed Technology
+ManagedBy: "[Watershed Technology](https://watershed.com)"
 UpdateFrequency: Annual
+Collabs:
+  ASDI:
+    Tags:
+      - sustainability
 Tags:
+  - aws-pds
   - climate
   - carbon
   - scope 3
@@ -21,6 +26,8 @@ Resources:
     ARN: arn:aws:s3:::open-ceda
     Region: us-west-2
     Type: S3 Bucket
+    Explore:
+      - "[Open CEDA](https://open-ceda.s3.amazonaws.com/index.html)"
 DataAtWork:
   Tutorials:
     - Title: For a tutoral please download the CEDA Methodology Documentation on the openceda.org website.
@@ -49,4 +56,4 @@ DataAtWork:
       URL: https://www.eurogypsum.org/wp-content/uploads/2015/05/N0533.pdf
       AuthorName: Arnold Tukker (TNO), Gjalt Huppes, Lauran van Oers, Reinout Heijungs (CML), 2006
 ADXCategories:
-  - Environmental Data
+  - Environmental Data

datasets/slacken.yaml

@@ -0,0 +1,40 @@
+Name: Metagenomic reference libraries for Slacken
+Description: Metagenomic indexes for use with the Slacken taxonomic classification tool
+Documentation: https://github.com/JNP-Solutions/Slacken/wiki/Pre%E2%80%90built-Slacken-indexes-on-Amazon-S3
+Contact: [email protected]
+ManagedBy: Johan Nyström-Persson
+UpdateFrequency: These indexes are currently what was used in our 2025 publication introducing the concept of 2-step classification and comparing Kraken2 with Slacken. We aim to update the data at least once per year, resources permitting.
+Tags:
+  - genomic
+  - metagenomics
+  - microbiome
+  - bioinformatics
+  - biology
+  - life sciences
+License: There are no restrictions on the use of this data.
+Resources:
+  - Description: Metagenomic indexes for Slacken, a metagenomic classifier, based on NCBI RefSeq genomes.
+    ARN: arn:aws:s3:::slacken
+    Region: us-east-1
+    Type: S3 Bucket
+    Explore:
+    - '[Browse Bucket](https://slacken.s3.amazonaws.com/)'
+DataAtWork:
+  Tutorials:
+    - Title: Classifying metagenomic samples on AWS ElasticMapReduce
+      URL: https://github.com/JNP-Solutions/Slacken/wiki/Classifying-metagenomic-samples-on-AWS-Elastic-MapReduce
+      Services:
+        - Amazon EC2
+        - Amazon EMR
+        - Amazon S3
+      AuthorName: Johan Nyström-Persson
+      AuthorURL: https://github.com/jtnystrom
+  Tools & Applications:
+    - Title: Slacken
+      URL: https://github.com/JNP-Solutions/Slacken
+      AuthorName: Johan Nyström-Persson, Nishad Bapatdhar
+      AuthorURL: https://github.com/jtnystrom
+  Publications:
+    - Title: "Precise and scalable metagenomic profiling with sample-tailored minimizer libraries"
+      URL: https://www.biorxiv.org/content/10.1101/2024.12.22.629657
+      AuthorName: Johan Nyström-Persson, Nishad Bapatdhar and Samik Ghosh