This code repository contains the "back-end" of the Nexus Microscopy Facility Laboratory Information Management System (NexusLIMS), developed by the NIST Office of Data and Informatics. Its primary function is to build XML-formatted research experiment records by combining metadata from many different sources (reservation systems, the collected data files, a session logger, etc.). These records are structured according to the "Nexus Experiment" schema, meaning they can be loaded into a repository and used for structured data queries.

We share an XML Schema for describing data collected from a laboratory experiment in an organized way that attempts to communicate scientific intent and the phased process of data creation. It was developed as part of laboratory information management system (LIMS) prototyping effort by a collaboration at NIST between the NEXUS Microscopy facility (managed within the Materials Science and Engineering Division) and the Material Measurement Lab's Office of Data and Informatics. When a facility user reserves and then operates one of the facility microscopes, the LIMS system automatically gathers metadata from the reservation calendar, the files created by the instrument, and potentially other sources and organizes them into an XML document describing what was done. The system uses the NIST Configurable Data Curation System (CDCS) to display the document as a scientist-oriented summary of the microscopy experiment. The schema is fairly general and free of specifics tied to microscopy (apart perhaps from a reference to samples). This schema is expected to be a useful prototype not only across LIMS efforts within NIST but possibly more broadly across the global microscopy research community. The XML schema is fully documented internally, including definitions of all elements and types.

We share an XML Schema for describing data collected from a laboratory experiment in an organized way that attempts to communicate scientific intent and the phased process of data creation. It was developed as part of laboratory information management system (LIMS) prototyping effort by a collaboration at NIST between the NEXUS Microscopy facility (managed within the Materials Science and Engineering Division) and the Material Measurement Lab's Office of Data and Informatics. When a facility user reserves and then operates one of the facility microscopes, the LIMS system automatically gathers metadata from the reservation calendar, the files created by the instrument, and potentially other sources and organizes them into an XML document describing what was done. The system uses the NIST Configurable Data Curation System (CDCS) to display the document as a scientist-oriented summary of the microscopy experiment. The schema is fairly general and free of specifics tied to microscopy (apart perhaps from a reference to samples). This schema is expected to be a useful prototype not only across LIMS efforts within NIST but possibly more broadly across the global microscopy research community. The XML schema is fully documented internally, including definitions of all elements and types.

The eAtlas is a web delivery platform for environmental research data that focuses on data management and data visualisation. As part of the National Environmental Science Program (NESP) the eAtlas was responsible for coordinating the publication of data generated by all research projects in the NESP Tropical Water Quality (TWQ) hub. The focus of the eAtlas was to: Actively engage projects on data management issues. Provide in-depth review of final datasets to ensure quality data publications suitable for future reuse. Provide permanent hosting and publication of the hub datasets and metadata. Develop and host visualisations of spatial datasets for users to quickly assess the suitability of the data for their research, and for environmental managers to view without specialist tools. Provide a web platform for creating project centric websites that highlight stories based around research project data The data management under the NESP TWQ hub was more successful than previous research programs that the eAtlas has been associated with over the last 12 years. A greater percentage of data products from research projects were captured and published to a high standard. As of 7 June 2021, 94 datasets were published from the NESP TWQ hub which is significantly more than the 49 datasets from the previous National Environmental Research Program Tropical Ecosystem (NERP TE) program in 2011 – 2014, and 14 datasets from the Marine and Tropical Science Research Facility (MTSRF) in 2008 - 2010. As part of the project final reporting a comparison was made between the size of the NESP TWQ metadata records, as measured by word count of the title, abstract and lineage, to those of similar environmental datasets in other data repositories, including the AODN, CSIRO, NESP MB hub and JCU. The aim of this analysis was to determine which aspects of the data management workflow used on NESP TWQ projects contributed to the level of detail in the metadata records. The spreadsheet associated with the word count analysis is available for download. More detail on the methods are available in the NESP-TWQ 5.15 final report (awating publication on the https://nesptropical.edu.au/ website).

이 데이터는 보건환경연구원에서 수행하는 다양한 검사 항목별로 어떤 분석장비를 사용하는지 정리한 목록입니다.각 항목은 일련번호, 검사 대상 물질 이름, 분석에 사용되는 장비 이름, 그리고 해당 장비를 운영하는 사용부서 정보로 구성되어 있습니다.이 데이터를 활용하여 GC/MS, LC/MS/MS2 등 정밀 분석 장비를 활용한 농약류와 마이크로시스틴류를 검사와 ICP-OES, ICP-MS, 분광광도계, 기체크로마토그래피 등 다양한 장비를 이용해 중금속·유기용제·산소요구량(BOD) 등의 항목을 분석한다는 것을 파악할 수 있습니다.이 자료는 항목별 검사 수행 체계를 이해하고 장비 운영 현황을 파악하는 데 활용될 수 있는 기초 정보로서 공익적 의미가 있습니다.

The e-Atlas is a website and mapping system for presenting environmental research data in an accessible form that promotes greater use of this information. It is also a data management system for preserving and encouraging reuse of this data. The e-Atlas is the primary data and knowledge repository for 38 NERP Tropical Ecosystems Hub projects, 6 Reef Rescue Marine Monitoring Program projects and historically, the Marine and Tropical Science Research Facility. This project will: Document (website and metadata), capture (repository) and visualise (mapping services) research outcomes of all NERP TE Hub projects in a readily accessible manner following the NERP TE Data Management Guidelines. These products will be made available in standard services (WMS, WFS, ISO19115, etc) following the National Plan for Environment Information (NPEI). Develop visualisations for all NERP TE Hub spatial and non-spatial data and make them available in a manner suitable for fostering research collaboration and to develop key datasets for use by environmental managers and policy makers. Expand the range of reference datasets in the e-Atlas that complement available research data as well as maintain and upgrade existing content in the e-Atlas (MTSRF data). Develop a Torres Strait e-Atlas that will make available Torres Strait content from NERP TE research, TSRA data and priority historical CSIRO data. This project will also develop a baselayer for the Torres Strait community based on Landsat imagery, QLD government aerial imagery, TSRA data and the development of a reef's dataset. Develop the e-Atlas systems (mapping system, data processing tools, metadata system and website) to best meet the needs of the end users.

ETSpy is a HyperSpy extension package package for the processing, aligment, and reconstruction of electron tomography data from TEM/STEM instruments. Tools are provided for basic tilt series data processing, stack alignment, and reconstruction using the ASTRA Toolbox.

The NIST Extensible Resource Data Model (NERDm) is a set of schemas for encoding in JSON format metadatathat describe digital resources. The variety of digital resources it can describe includes not onlydigital data sets and collections, but also software, digital services, web sites and portals, anddigital twins. It was created to serve as the internal metadata format used by the NIST Public DataRepository and Science Portal to drive rich presentations on the web and to enable discovery; however, itwas also designed to enable programmatic access to resources and their metadata by external users.Interoperability was also a key design aim: the schemas are defined using the JSON Schema standard,metadata are encoded as JSON-LD, and their semantics are tied to community ontologies, with an emphasison DCAT and the US federal Project Open Data (POD) models. Finally, extensibility is also central to itsdesign: the schemas are composed of a central core schema and various extension schemas. New extensionsto support richer metadata concepts can be added over time without breaking existing applications.Validation is central to NERDm's extensibility model. Consuming applications should be able to choosewhich metadata extensions they care to support and ignore terms and extensions they don't support.Furthermore, they should not fail when a NERDm document leverages extensions they don't recognize, evenwhen on-the-fly validation is required. To support this flexibility, the NERDm framework allowsdocuments to declare what extensions are being used and where. We have developed an optional extensionto the standard JSON Schema validation (see ejsonschema below) to support flexible validation: while astandard JSON Schema validater can validate a NERDm document against the NERDm core schema, our extensionwill validate a NERDm document against any recognized extensions and ignore those that are notrecognized.The NERDm data model is based around the concept of resource, semantically equivalent to a schema.orgResource, and as in schema.org, there can be different types of resources, such as data sets andsoftware. A NERDm document indicates what types the resource qualifies as via the JSON-LD "@type"property. All NERDm Resources are described by metadata terms from the core NERDm schema; however,different resource types can be described by additional metadata properties (often drawing on particularNERDm extension schemas). A Resource contains Components of various types (includingDCAT-defined Distributions) that are considered part of the Resource; specifically, these can include downloadable data files, hierachical datacollecitons, links to web sites (like software repositories), software tools, or other NERDm Resources.Through the NERDm extension system, domain-specific metadata can be included at either the resource orcomponent level. The direct semantic and syntactic connections to the DCAT, POD, and schema.org schemasis intended to ensure unambiguous conversion of NERDm documents into those schemas.As of this writing, the Core NERDm schema and its framework stands at version 0.7 and is compatible withthe "draft-04" version of JSON Schema. Version 1.0 is projected to be released in 2025. In thatrelease, the NERDm schemas will be updated to the "draft2020" version of JSON Schema. Other improvementswill include stronger support for RDF and the Linked Data Platform through its support of JSON-LD.