scholarly journals Biologer: an open platform for collecting biodiversity data

2020 ◽  
Vol 8 ◽  
Author(s):  
Miloš Popović ◽  
Nikola Vasić ◽  
Toni Koren ◽  
Ivona Burić ◽  
Nenad Živanović ◽  
...  

We have developed a new platform named "Biologer" intended for recording species observations in the field (but also from literature resources and collections). The platform is created as user-friendly, open source, multilingual software that is compatible with Darwin Core standard and accompanied by a simple Android application. It is made from the user’s perspective, allowing everyone to choose how they share the data. Project team members are delegated by involved organisations. The team is responsible for development of the platform, while local Biologer communities are engaged in data collection and verification. Biologer has been online and available for use in Serbia since 2018 and was soon adopted in Croatia and Bosnia and Herzegovina. In total, we have assembled 536 users, who have collected 163,843 species observation records data from the field and digitalised 33,458 literature records. The number of active users and their records is growing daily. Out of the total number of gathered data, 89% has been made open access by the users, 10% is accessible on the scale of 10×10 km and only 1% is closed. In the future, we plan to provide a taxonomic data portal that could be used by local and national initiatives in Eastern Europe, aggregate all data into a single web location, create detailed data overview and enable fluent communication between users.

2019 ◽  
Vol 16 ◽  
pp. 75-83 ◽  
Author(s):  
Frank Kaspar ◽  
Frank Kratzenstein ◽  
Andrea K. Kaiser-Weiss

Abstract. During recent years, Germany's national meteorological service (Deutscher Wetterdienst, DWD) has significantly expanded the open access to its climate observations. A first step was a simple FTP-site with the possibility for downloading archives with various categories of data, e.g. national and international station-based meteorological data, derived parameters, gridded products and special categories as e.g. phenological data. The data are based on the observing systems of DWD for Germany as well as international activities of DWD. To improve the interactive and user-friendly access to the data, a new portal has been developed. The portal serves a variety of user requirements that result from the broad range of applications of DWD's climate data. Here we provide an overview of the new climate data portal of DWD. It is based on a systematic implementation of OGC-based technologies. It allows easy graphical access to the station data, but also supports access via technical interfaces, esp. Web-Map- and Web-Feature-Services.


Author(s):  
Tomer Gueta ◽  
Vijay Barve ◽  
Thiloshon Nagarajah ◽  
Povilas Gibas ◽  
Yohay Carmel

The bdverse is a collection of packages that form a general framework for facilitating biodiversity science in R. We build it to serve as a sustainable and agile infrastructure that enhances the value of biodiversity data by allowing users to conveniently employ R, for data exploration, quality assessment, data cleaning, and standardization. The bdverse supports users with and without programming capabilities. It includes six unique packages in a hierarchal structure — representing different functionality levels (Fig. 1). Major features of three core packages will be highlighted and demonstrated: (i) bdDwC provides an interactive Shiny app and a set of functions for standardizing field names in compliance with Darwin Core (DwC) format; (ii) bdchecks is an infrastructure for performing, filtering and managing various biodiversity data checks; (iii) bdclean is a user-friendly data cleaning Shiny app for the inexperienced R user. It provides features to manage complete workflow for biodiversity data cleaning, including data upload; user input - in order to adjust cleaning procedures; data cleaning; and finally, generation of various reports and versions of the data. We are now working on submitting the bdverse packages to rOpenSci software review, and as soon as the packages meet core requirements, we will officially release the bdverse. The bdverse project won the 2nd prize in the 2018 Ebbe Nielsen Challenge.


Author(s):  
Maaz Sirkhot ◽  
Ekta Sirwani ◽  
Aishwarya Kourani ◽  
Akshit Batheja ◽  
Kajal Jethanand Jewani

In this technological world, smartphones can be considered as one of the most far-reaching inventions. It plays a vital role in connecting people socially. The number of mobile users using an Android based smartphone has increased rapidly since last few years resulting in organizations, cyber cell departments, government authorities feeling the need to monitor the activities on certain targeted devices in order to maintain proper functionality of their respective jobs. Also with the advent of smartphones, Android became one of the most popular and widely used Operating System. Its highlighting features are that it is user friendly, smartly designed, flexible, highly customizable and supports latest technologies like IoT. One of the features that makes it exclusive is that it is based on Linux and is Open Source for all the developers. This is the reason why our project Mackdroid is an Android based application that collects data from the remote device, stores it and displays on a PHP based web page. It is primarily a monitoring service that analyzes the contents and distributes it in various categories like Call Logs, Chats, Key logs, etc. Our project aims at developing an Android application that can be used to track, monitor, store and grab data from the device and store it on a server which can be accessed by the handler of the application.


2020 ◽  
Vol 17 (03) ◽  
pp. 2050010
Author(s):  
Saeed Saeedvand ◽  
Hadi S. Aghdasi ◽  
Jacky Baltes

Although there are several popular and capable humanoid robot designs available in the kid-size range, they lack some important characteristics: affordability, being user-friendly, using a wide-angle camera, sufficient computational resources for advanced AI algorithms, and mechanical robustness and stability are the most important ones. Recent advances in 3D printer technology enables researchers to move from model to physical implementation relatively easy. Therefore, we introduce a novel fully 3D printed open platform humanoid robot design named ARC. In this paper, we discuss the mechanical structure and software architecture. We show the capabilities of the ARC design in a series of experimental evaluations.


CytoJournal ◽  
2012 ◽  
Vol 9 ◽  
pp. 1 ◽  
Author(s):  
Vinod B. Shidham ◽  
Martha B. Pitman ◽  
Richard M. DeMay

Most of the scientific work presented as abstracts (platforms and posters) at various conferences have the potential to be published as articles in peer-reviewed journals. This DIY (Do It Yourself) article on how to achieve that goal is an extension of the symposium presented at the 36th European Congress of Cytology, Istanbul, Turkey (presentation available on net at http://alturl.com/q6bfp). The criteria for manuscript authorship should be based on the ICMJE (International Committee of Medical Journal Editors) Uniform Requirements for Manuscripts. The next step is to choose the appropriate journal to submit the manuscript and review the ‘Instructions to the authors’ for that journal. Although initially it may appear to be an insurmountable task, diligent organizational discipline with a little patience and perseverance with input from mentors should lead to the preparation of a nearly perfect publishable manuscript even by a novice. Ultimately, the published article is an excellent track record of academic productivity with contribution to the general public good by encouraging the exchange of experience and innovation. It is a highly rewarding conduit to the personal success and growth leading to the collective achievement of continued scientific progress. Recent emergences of journals and publishers offering the platform and opportunity to publish under an open access charter provides the opportunity for authors to protect their copyright from being lost to conventional publishers. Publishing your work on this open platform is the most rewarding mission and is the recommended option in the current modern era. [This open access article can be linked (copy-paste link from HTML version of this article) or reproduced FREELY if original reference details are prominently identifiable].


Author(s):  
Gautam Talukdar ◽  
Andrew Townsend Peterson ◽  
Vinod Mathur

In India, biodiversity data and information are gaining significance for sustainable development and preparing National Biodiversity Strategies and Action Plans (NBSAPs). Civil societies and individuals are seeking open access to data and information generated with public funds, whereas sensitivity requirements often demand restrictions on the availability of sensitive data. In India, the traditional classification of data for sharing was based on the "Open Series Data" model; i.e. data not specifically included remains inaccessible. The National Data Sharing and Accessibility Policy (NDSAP Anonymous 2012Suppl. material 1) published in 2012 produced a new data sharing framework more focused on the declaration of data as closed. NDSAP is a clear statement that data that are produced by the Government of India should be shared openly. Although much of the verbiage is focused on sharing within the Government to meet national goals, the document does include clear statements about sharing with the public. The policy is intended to apply "to all data and information created, generated, collected and archived using public funds provided by the Government of India". The policy is quite clear that it should apply to all such data, and that such data should be categorized into open-access, registered-access, or restricted-access. NDSAP indicates that all Government of India-produced/funded data is to be opened to the broader community, but provides three access categories (open, registered, restricted). Although NDSAP does not offer much guidance about what sorts of data should fall in each of the categories, it clearly focuses on data sensitive in terms of national security (i.e., data that must be restricted), such as high-resolution satellite imagery of disputed border regions. Institutions collecting biodiversity data usually include primary, research-grade data in the restricted-access category and secondary / derived data (e.g., vegetation maps, species distribution maps) in the open or registered-access category. The conservative approach of not making bioidiversity data easily accessible, is not in accordance with the NDSAP policy, which emphasizes the openness of data. It also counters the main currents in science, which are shifting massively in the direction of opening access to data. Though NDSAP was intended for full implementation by 2014, its uptake by the institutions engaged in primary biodiversity data collection has been slow mainly because: providing primary data in some cases can endanger elements of the natural world; and many researchers wish to keep the data that result from their research activities shielded from full, open access out of a desire to retain control of those data for future analysis or publication. providing primary data in some cases can endanger elements of the natural world; and many researchers wish to keep the data that result from their research activities shielded from full, open access out of a desire to retain control of those data for future analysis or publication. Biodiversity data collected as part of institutional activities belong, in some sense, to the institution, and the institution should value such data over the long term. If institutions curate their biodiversity data for posterity, they can reap the benefits. Imagine the returns if biodiversity data from current ongoing projects were to be compared to data collected 50-100 years later. Thus, organizations should emphasize the long-term view of institutionalizing data resources through fair data restrictions and emphasise on public access, rather than on individual rights and control. This approach may be debatable, but we reckon that it will translate into massive science pay-offs.


2018 ◽  
Vol 2 ◽  
pp. e25564
Author(s):  
Tomer Gueta ◽  
Vijay Barve ◽  
Thiloshon Nagarajah ◽  
Ashwin Agrawal ◽  
Yohay Carmel

A new R package for biodiversity data cleaning, 'bdclean', was initiated in the Google Summer of Code (GSoC) 2017 and is available on github. Several R packages have great data validation and cleaning functions, but 'bdclean' provides features to manage a complete pipeline for biodiversity data cleaning; from data quality explorations, to cleaning procedures and reporting. Users are able go through the quality control process in a very structured, intuitive, and effective way. A modular approach to data cleaning functionality should make this package extensible for many biodiversity data cleaning needs. Under GSoC 2018, 'bdclean' will go through a comprehensive upgrade. New features will be highlighted in the demonstration.


2013 ◽  
Vol 8 (1) ◽  
pp. 84-106 ◽  
Author(s):  
Tomasz Neugebauer ◽  
Annie Murray

This paper examines the development of the Open Access movement in scholarly communication, with particular attention to some of the rhetorical strategies and policy mechanisms used to promote it to scholars and scientists. Despite the majority of journal publishers’ acceptance of author self-archiving practices, and the minimal time commitment required by authors to successfully self-archive their work in disciplinary or institutional repositories, the majority of authors still by and large avoid participation. The paper reviews the strategies and arguments used for increasing author participation in open access, including the role of open access mandates. We recommend a service-oriented approach towards increasing participation in open access, rather than rhetoric that speculates on the benefits that open access will have on text/data mining innovation. In advocating for open access participation, we recommend focusing on its most universal and tangible purpose: increasing public open (gratis) access to the published results of publicly funded research. Researchers require strong institutional support to understand the copyright climate of open access self-archiving, user-friendly interfaces and useful metrics, such as repository usage statistics. We recommend that mandates and well-crafted and responsive author support services at universities will ultimately be required to ensure the growth of open access. We describe the mediated deposit service that was developed to support author self-archiving in Spectrum: Concordia University Research Repository. By comparing the number of deposits of non-thesis materials (e.g. articles and conference presentations) that were accomplished through the staff-mediated deposit service to the number of deposits that were author-initiated, we demonstrate the relative significance of this service to the growth of the repository.


2021 ◽  
Vol 2 (3) ◽  
pp. 382-389
Author(s):  
Rian Yussandi

Android is a mobile device on the operating system for mobile phones based on Linux, android provides an open platform for developers to create applications. Android-based application developers make applications so that they can be useful for the community ranging from game genre applications, education, entertainment and simulation applications that are very likely to be created and run on this android operating system. Simulation is the process of designing a matemastis or logical model of a real system, conducting experiments on models using computers to describe, explain and predict system behavior. For a simulation application company can be used as a medium of product promotion, while for smartphone users can help to channel the existing imagination into a real picture. The application of simulation applications many functions, one example of its application to two-wheeled motor vehicles. By utilizing android application and the growth of vehicle users that lead to the hobby of modification, it can be utilized by creating an android-based coloring simulation application to help modifiers and modification lovers in order to channel their imagination and make it easier to design colors as desired. Without having to bother using design software that requires special skills


Author(s):  
Tiara Bunga Mayang Permata ◽  
Sri Mutya Sekarutami ◽  
Endang Nuryadi ◽  
Angela Giselvania ◽  
Soehartati Gondhowiardjo

In the current big data era, massive genomic cancer data are available for open access from anywhere in the world. They are obtained from popular platforms, such as The Cancer Genome Atlas, which provides genetic information from clinical samples, and Cancer Cell Line Encyclopedia, which offers genomic data of cancer cell lines. For convenient analysis, user-friendly tools, such as the Tumor Immune Estimation Resource (TIMER), which can be used to analyze tumor-infiltrating immune cells comprehensively, are also emerging. In clinical practice, clinical sequencing has been recommended for patients with cancer in many countries. Despite its many challenges, it enables the application of precision medicine, especially in medical oncology. In this review, several efforts devoted to accomplishing precision oncology and applying big data for use in Indonesia are discussed. Utilizing open access genomic data in writing research articles is also described.


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