Search Results for: datasets

Now Available! Updated NCBI Datasets Command-Line Tools 

Now Available! Updated NCBI Datasets Command-Line Tools 

NLM’s NCBI Datasets announces the release of version 14 of our command-line (CLI) tools, datasets, and dataformat. This release (CLI v14.0.0) contains many improvements that are inspired by your feedback. It’s now easier than ever to browse and format metadata, generate customized tables, and download data packages. We hope these updates will improve your experience!  … Continue reading Now Available! Updated NCBI Datasets Command-Line Tools 

Introducing NLM’s new NCBI Datasets genome page!

Introducing NLM’s new NCBI Datasets genome page!

As part of an ongoing effort to modernize and improve your experience, NLM’s NCBI Datasets is introducing all-new genome pages. These pages make it easier for you to browse and download genome sequence and metadata, and navigate to tools such as the Genome Data Viewer (GDV) and BLAST. To get started, search NCBI Datasets by … Continue reading Introducing NLM’s new NCBI Datasets genome page!

Announcing the NCBI Datasets SARS-CoV-2 taxonomy page

Announcing the NCBI Datasets SARS-CoV-2 taxonomy page

Need SARS-CoV-2 assembled genome sequences or specific SARS-CoV-2 protein sequences? You can find them on the new SARS-CoV-2 taxonomy page brought to you by NCBI Datasets. The NCBI Datasets SARS-CoV-2 taxonomy page brings you both SARS-CoV-2 genomes and proteins, basic information about SARS-CoV-2, and connections to related NCBI pages, all in one place (see Figures … Continue reading Announcing the NCBI Datasets SARS-CoV-2 taxonomy page

NLM’s all-new NCBI Datasets genome table is now available

NLM’s all-new NCBI Datasets genome table is now available

We are excited to introduce new and useful updates to the Datasets genome table that let you quickly find and download a genome dataset including genome, transcript and protein sequence, annotation, and a data report. The new genome table includes many new features and benefits (see Figure 1). With the new genome table you can: Find … Continue reading NLM’s all-new NCBI Datasets genome table is now available

Try out Datasets and ElasticBLAST at the BOSC 2022 CoFest!

Try out Datasets and ElasticBLAST at the BOSC 2022 CoFest!

Join NLM’s NCBI at the virtual CollaborationFest on July 15 from 08:00 – 11:00 CDT and 12:00 – 16:00 CDT following the BOSC 2022 conference. Get an in-depth orientation and opportunity to test the capabilities of Datasets and ElasticBLAST. What is Datasets? Datasets is a new resource that lets you easily gather data from across … Continue reading Try out Datasets and ElasticBLAST at the BOSC 2022 CoFest!

Coming soon! Changes to NCBI Datasets command-line tool in version 14 (CLIv14.0.0)

Coming soon! Changes to NCBI Datasets command-line tool in version 14 (CLIv14.0.0)

In October 2022, NCBI Datasets will release version 14 of our datasets and dataformat command-line tools. This release will contain breaking changes to the command syntax, content of the data packages and data reports. Thank you for your feedback that inspired these new features. We hope they will improve your experience! We will continue to … Continue reading Coming soon! Changes to NCBI Datasets command-line tool in version 14 (CLIv14.0.0)

PubMed Central Article Datasets are Now Available on the Cloud

To enhance machine access to biomedical literature and drive impactful analyses and reuse, the National Library of Medicine (NLM) is pleased to announce the availability of the PubMed Central (PMC) Article Datasets on Amazon Web Services (AWS) Registry of Open Data as part of AWS’s Open Data Sponsorship Program (ODP). These datasets collectively span 4 million of PMC’s 7 million … Continue reading PubMed Central Article Datasets are Now Available on the Cloud

An Introduction to Molecular Evolutionary Analysis with NCBI Datasets and Python

An Introduction to Molecular Evolutionary Analysis with NCBI Datasets and Python

This workshop concluded on July 21, 2022. The workshop materials are available here.  As they diverge from a common ancestor, species accumulate differences in their DNA sequences. Differences within a protein-coding region are classified in two types. Non-synonymous substitutions change the amino acid sequence of the protein, while synonymous substitutions do not. Synonymous substitutions are largely invisible to natural … Continue reading An Introduction to Molecular Evolutionary Analysis with NCBI Datasets and Python

Introducing the new NCBI Datasets Genomes page

The updated NCBI Datasets Genomes page now has genome data for all domains of life, including bacterial and viral genomes. The genomes table (Figure 1) now offers filters for: Reference genomes — switch it on to only show reference or representative genomes Annotated — switch it on to only show annotated genomes Assembly level — use the assembly level … Continue reading Introducing the new NCBI Datasets Genomes page