30,807 research outputs found
Searching Data: A Review of Observational Data Retrieval Practices in Selected Disciplines
A cross-disciplinary examination of the user behaviours involved in seeking
and evaluating data is surprisingly absent from the research data discussion.
This review explores the data retrieval literature to identify commonalities in
how users search for and evaluate observational research data. Two analytical
frameworks rooted in information retrieval and science technology studies are
used to identify key similarities in practices as a first step toward
developing a model describing data retrieval
New Methods, Current Trends and Software Infrastructure for NLP
The increasing use of `new methods' in NLP, which the NeMLaP conference
series exemplifies, occurs in the context of a wider shift in the nature and
concerns of the discipline. This paper begins with a short review of this
context and significant trends in the field. The review motivates and leads to
a set of requirements for support software of general utility for NLP research
and development workers. A freely-available system designed to meet these
requirements is described (called GATE - a General Architecture for Text
Engineering). Information Extraction (IE), in the sense defined by the Message
Understanding Conferences (ARPA \cite{Arp95}), is an NLP application in which
many of the new methods have found a home (Hobbs \cite{Hob93}; Jacobs ed.
\cite{Jac92}). An IE system based on GATE is also available for research
purposes, and this is described. Lastly we review related work.Comment: 12 pages, LaTeX, uses nemlap.sty (included
Research and Development Workstation Environment: the new class of Current Research Information Systems
Against the backdrop of the development of modern technologies in the field
of scientific research the new class of Current Research Information Systems
(CRIS) and related intelligent information technologies has arisen. It was
called - Research and Development Workstation Environment (RDWE) - the
comprehensive problem-oriented information systems for scientific research and
development lifecycle support. The given paper describes design and development
fundamentals of the RDWE class systems. The RDWE class system's generalized
information model is represented in the article as a three-tuple composite web
service that include: a set of atomic web services, each of them can be
designed and developed as a microservice or a desktop application, that allows
them to be used as an independent software separately; a set of functions, the
functional filling-up of the Research and Development Workstation Environment;
a subset of atomic web services that are required to implement function of
composite web service. In accordance with the fundamental information model of
the RDWE class the system for supporting research in the field of ontology
engineering - the automated building of applied ontology in an arbitrary domain
area, scientific and technical creativity - the automated preparation of
application documents for patenting inventions in Ukraine was developed. It was
called - Personal Research Information System. A distinctive feature of such
systems is the possibility of their problematic orientation to various types of
scientific activities by combining on a variety of functional services and
adding new ones within the cloud integrated environment. The main results of
our work are focused on enhancing the effectiveness of the scientist's research
and development lifecycle in the arbitrary domain area.Comment: In English, 13 pages, 1 figure, 1 table, added references in Russian.
Published. Prepared for special issue (UkrPROG 2018 conference) of the
scientific journal "Problems of programming" (Founder: National Academy of
Sciences of Ukraine, Institute of Software Systems of NAS Ukraine
Enriching Existing Test Collections with OXPath
Extending TREC-style test collections by incorporating external resources is
a time consuming and challenging task. Making use of freely available web data
requires technical skills to work with APIs or to create a web scraping program
specifically tailored to the task at hand. We present a light-weight
alternative that employs the web data extraction language OXPath to harvest
data to be added to an existing test collection from web resources. We
demonstrate this by creating an extended version of GIRT4 called GIRT4-XT with
additional metadata fields harvested via OXPath from the social sciences portal
Sowiport. This allows the re-use of this collection for other evaluation
purposes like bibliometrics-enhanced retrieval. The demonstrated method can be
applied to a variety of similar scenarios and is not limited to extending
existing collections but can also be used to create completely new ones with
little effort.Comment: Experimental IR Meets Multilinguality, Multimodality, and Interaction
- 8th International Conference of the CLEF Association, CLEF 2017, Dublin,
Ireland, September 11-14, 201
Community standards for open cell migration data
Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited owing to the diversity of experimental protocols and non-standardized output formats. In addition, typically the datasets are not open for reuse. Making the data open and Findable, Accessible, Interoperable, and Reusable (FAIR) will enable meta-analysis, data integration, and data mining. Standardized data formats and controlled vocabularies are essential for building a suitable infrastructure for that purpose but are not available in the cell migration domain. We here present standardization efforts by the Cell Migration Standardisation Organisation (CMSO), an open community-driven organization to facilitate the development of standards for cell migration data. This work will foster the development of improved algorithms and tools and enable secondary analysis of public datasets, ultimately unlocking new knowledge of the complex biological process of cell migration
ImageJ2: ImageJ for the next generation of scientific image data
ImageJ is an image analysis program extensively used in the biological
sciences and beyond. Due to its ease of use, recordable macro language, and
extensible plug-in architecture, ImageJ enjoys contributions from
non-programmers, amateur programmers, and professional developers alike.
Enabling such a diversity of contributors has resulted in a large community
that spans the biological and physical sciences. However, a rapidly growing
user base, diverging plugin suites, and technical limitations have revealed a
clear need for a concerted software engineering effort to support emerging
imaging paradigms, to ensure the software's ability to handle the requirements
of modern science. Due to these new and emerging challenges in scientific
imaging, ImageJ is at a critical development crossroads.
We present ImageJ2, a total redesign of ImageJ offering a host of new
functionality. It separates concerns, fully decoupling the data model from the
user interface. It emphasizes integration with external applications to
maximize interoperability. Its robust new plugin framework allows everything
from image formats, to scripting languages, to visualization to be extended by
the community. The redesigned data model supports arbitrarily large,
N-dimensional datasets, which are increasingly common in modern image
acquisition. Despite the scope of these changes, backwards compatibility is
maintained such that this new functionality can be seamlessly integrated with
the classic ImageJ interface, allowing users and developers to migrate to these
new methods at their own pace. ImageJ2 provides a framework engineered for
flexibility, intended to support these requirements as well as accommodate
future needs
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