New and improved PsycLINK: PsycLINK has a wealth of new information, served up on a more user-friendly Web platform

AbstractBatch effects are unwanted data variations that may obscure biological signals, leading to bias or errors in subsequent data analyses. Effective evaluation and elimination of batch effects are necessary for omics data analysis. In order to facilitate the evaluation and correction of batch effects, here we present BatchSever, an open-source R/Shiny based user-friendly interactive graphical web platform for batch effects analysis. In BatchServer we introduced autoComBat, a modified version of ComBat, which is the most widely adopted tool for batch effect correction. BatchServer uses PVCA (Principal Variance Component Analysis) and UMAP (Manifold Approximation and Projection) for evaluation and visualizion of batch effects. We demonstate its application in multiple proteomics and transcriptomic data sets. BatchServer is provided at https://lifeinfo.shinyapps.io/batchserver/ as a web server. The source codes are freely available at https://github.com/guomics-lab/batch_server.

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Retskrivningsordbog mellem to stole

HERMES - Journal of Language and Communication in Business ◽

10.7146/hjlcb.v26i50.97828 ◽

2017 ◽

Vol 26 (50) ◽

pp. 127

Author(s):

Sven Tarp

Keyword(s):

Information Technologies ◽

Electronic Version ◽

Point Of View ◽

Theory And Practice ◽

New Information ◽

Previous Edition ◽

Knowledge Of Language ◽

The One ◽

User Friendly ◽

And Linguistics

In November 2012, the fourth edition of the official Danish orthographic dictionary, Retskrivningsordbogen, was published by the Danish Language Board which, according to national law, is authorised to establish the official Danish orthography and publish its decisions in the form of a dictionary, now available in both a printed and an electronic version. In order to be high quality, a work of this sort requires knowledge of language policy and linguistics, on the one hand, and lexicography, on the other hand. The article analyses the Retskrivningsordbogen exclusively from the point of view of lexicographic theory and practice, based upon a similar analysis of the previous edition (cf. Tarp 2002). It registers a number of improvements but also some stagnation and new problems in other aspects. The general conclusion is that the Danish Language Board could benefit from lexicographic knowhow as well as the new information technologies, especially with a view to developing the electronic version which should no longer be conceived as a copy of its printed counterpart but as a user-friendly extension with more lemmata and additional data.

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GATEWAY: A GEOSPATIAL ANALYTICS SYSTEM

ISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences ◽

10.5194/isprs-archives-xlii-4-w19-283-2019 ◽

2019 ◽

Vol XLII-4/W19 ◽

pp. 283-288

Author(s):

L. J. Lao ◽

B. J. Harder

Keyword(s):

Spatial Data ◽

Machine Learning Algorithms ◽

Spatial Data Analysis ◽

Business Analytics ◽

Common Location ◽

Market Factors ◽

Area Prioritization ◽

User Friendly ◽

Web Platform ◽

Future Plans

Abstract. This paper presents an overview of the Gateway web platform, a proprietary geospatial analytics system developed by Cobena Business Analytics and Strategy, Inc.1 The application is intended to serve as a user-friendly and easily-accessible tool for spatial data analysis and visualization geared toward non-technical specialists. Gateway’s core functionalities hinge on mapping and data visualization (choropleths and points) alongside traditional scoring methods and built-in machine learning algorithms for area prioritization and site selection. Gateway provides an interactive, cloud-based environment that abstracts and simplifies common location-based analyses. A core strength of the platform is also its heavy localization to the Philippine context through a curated database of market information — with future plans to create local counterparts across SEA — which reduces the need for extensive external market data collection and reconciliation. The paper gives a brief review of the system design and key features of the platform. It also highlights some key applications across industries such as real estate, consumer goods, and retail in informing expansion and distribution strategies, prioritizing resource allocation, and analyzing historical performance against market factors.

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Extraction of Metadata from Images

International Journal of Technology ◽

10.52711/2231-3915.2021.00003 ◽

2021 ◽

pp. 19-22

Author(s):

Rohit S ◽

M N Nachappa

Keyword(s):

Programming Language ◽

Specific Data ◽

Python Programming Language ◽

The World ◽

Python Programming ◽

User Friendly ◽

Web Platform ◽

The Web

Metadata is defined as the information providing data about one or more faces of the data. It is used to abridge basic indication about data which can make pursuing and working with specific data easier. The idea of metadata is often prolonged to involve words or phrases that stand for objects or “objects” in the world, leading to the notion of unit extraction. In this paper, I am proposing extracting the metadata of the files user inputs to the system, this can be achieved using Flask as the web platform and Python programming language, our goal is to make a free and lightweight metadata extractor which is more efficient and user friendly.

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Molecular Networking Discloses the Chemical Diversity of Flavonoids and Selaginellins in Selaginella convoluta

Planta Medica ◽

10.1055/a-1315-0666 ◽

2020 ◽

Author(s):

Fernanda Priscila Santos Reginaldo ◽

Paula Carolina Pires Bueno ◽

Isabelly Cristina de Matos Costa ◽

Alan de Araújo Roque ◽

Arthur Germano Fett-Neto ◽

...

Keyword(s):

Natural Habitat ◽

Resistance Mechanism ◽

Chemical Diversity ◽

Semiarid Region ◽

Structural Annotation ◽

Molecular Networking ◽

Specialized Metabolites ◽

New Information ◽

Brazilian Semiarid ◽

Web Platform

Abstract Selaginella convoluta is a desiccation tolerant plant native to the Brazilian semiarid region (Caatinga), endowed with an effective drought resistance mechanism. As part of our research efforts to understand the chemical diversity of S. convoluta, dehydrated (harvested in their natural habitat in the dry season) and hydrated (plant acclimated in a laboratory after rehydration) specimens were analyzed by HR-LC-ESI-MS/MS followed by a structural annotation on the Global Natural Products Social Molecular Networking Web platform. The molecular networking approach allowed for putative annotation of 39 metabolites, mainly selaginellins and flavonoids. Based on MS/MS data, three unprecedented selaginellins were annotated: 29-hydroxy selaginellin O, 29-hydroxy selaginellin A, and 4-{[2-(4-hydrophenyl)-6-[2-(4-hydroxyphenyl)ethynyl]phenyl](4-oxocyclohexa-2,5-dien-1-ylidene)methyl}benzaldehyde. Th results pointed out that valuable scientific knowledge can be obtained from studies conducted with plants in their natural habitat by allowing a more realistic profile of chemical diversity. The present study adds new information on specialized metabolites of S. convoluta, mainly flavonoids and selaginellins, and highlights the species as an untapped source of chemobiodiversity from Caatinga.

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A USER-FRIENDLY REMOTE-SENSING WEB-PLATFORM FOR BIODIVERSITY CONSERVATION AND MANAGEMENT IN PROTECTED AREAS

ISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences ◽

10.5194/isprs-archives-xlii-3-w12-2020-441-2020 ◽

2020 ◽

Vol XLII-3/W12-2020 ◽

pp. 441-446

Author(s):

R. O. Chávez ◽

J. A. Lastra ◽

D. Valencia ◽

I. Díaz-Hormazábal

Keyword(s):

Remote Sensing ◽

Protected Areas ◽

Confidence Intervals ◽

Web Application ◽

Vegetation Index ◽

R Package ◽

Severe Drought ◽

User Friendly ◽

Web Platform ◽

Conservation And Management

Abstract. The Chilean SNASPE is a complex network of 104 protected areas covering 18.5 million hectares of continental and insular Chile in South America. The geographical complexity and high biodiversity of the SNASPE make difficult to develop a unified monitoring system for conservation and management. In this contribution, we introduce a novel and remote-sensing web-platform for monitoring SNASPE units based completely in open acces data and software. The platform was designed in close cooperation with the Chilean forest service CONAF in order to make it applicable to the whole SNASPE. Following the framework of the Group on Earth Observation - Biodiversity Observation Network (GEO-BON), we used the Essential Biodiversity Variable (EBV) Phenology and MODIS Enhanced Vegetation Index (EVI) data to detect in near-real-time anomalies from the normal annual phenological cycle of vegetation. The platform is based on a flexible non-parametric probabilistic algorithm (the “npphen” R package) capable to reconstruct any type of leaf phenology and to quantify its inter-annual variation by means of confidence intervals around the most probable annual curve. Phenological anomalies are then calculated as a deviation from the expected annual cycle and judged based on their location within the confidence intervals. Anomalies located above 95% confidence interval trigger a “red alert” which is displayed on the web application as soon as the MODIS data become available. This user-friendly platform was implemented in the La Campana National Park giving early alerts of a severe drought in 2019, warning Conaf to implement actions to protect the park from potential wild fires.

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The Integrated Rapid Infectious Disease Analysis (IRIDA) Platform

10.1101/381830 ◽

2018 ◽

Cited By ~ 7

Author(s):

Thomas C Matthews ◽

Franklin R Bristow ◽

Emma J Griffiths ◽

Aaron Petkau ◽

Josh Adam ◽

...

Keyword(s):

Public Health ◽

Infectious Disease ◽

Real Time ◽

Data Sharing ◽

Disease Outbreak ◽

Infectious Disease Outbreak ◽

Outbreak Investigations ◽

User Friendly ◽

Disease Analysis ◽

Web Platform

AbstractWhole genome sequencing (WGS) is a powerful tool for public health infectious disease investigations owing to its higher resolution, greater efficiency, and cost-effectiveness over traditional genotyping methods. Implementation of WGS in routine public health microbiology laboratories is impeded by a lack of user-friendly automated and semi-automated pipelines, restrictive jurisdictional data sharing policies, and the proliferation of non-interoperable analytical and reporting systems. To address these issues, we developed the Integrated Rapid Infectious Disease Analysis (IRIDA) platform (irida.ca), a user-friendly, decentralized, open-source bioinformatics and analytical web platform to support real-time infectious disease outbreak investigations using WGS data. Instances can be independently installed on local high-performance computing infrastructure, enabling private and secure data management and analyses according to organizational policies and governance. IRIDA’s data management capabilities enable secure upload, storage and sharing of all WGS data and metadata. The core platform currently includes pipelines for quality control, assembly, annotation, variant detection, phylogenetic analysis, in silico serotyping, multi-locus sequence typing, and genome distance calculation. Analysis pipeline results can be visualized within the platform through dynamic line lists and integrated phylogenomic clustering for research and discovery, and for enhancing decision-making support and hypothesis generation in epidemiological investigations. Communication and data exchange between instances are provided through customizable access controls. IRIDA complements centralized systems, empowering local analytics and visualizations for genomics-based microbial pathogen investigations. IRIDA is currently transforming the Canadian public health ecosystem and is freely available at https://github.com/phac-nml/irida and www.irida.ca.Impact StatementWhole genome sequencing (WGS) is revolutionizing infectious disease analysis and surveillance due to its cost effectiveness, utility, and improved analytical power. To date, no “one-size-fits-all” genomics platform has been universally adopted, owing to differences in national (and regional) health information systems, data sharing policies, computational infrastructures, lack of interoperability and prohibitive costs. The Integrated Rapid Infectious Disease Analysis (IRIDA) platform is a user-friendly, decentralized, open-source bioinformatics and analytical web platform developed to support real-time infectious disease outbreak investigations using WGS data. IRIDA empowers public health, regulatory and clinical microbiology laboratory personnel to better incorporate WGS technology into routine operations by shielding them from the computational and analytical complexities of big data genomics. IRIDA is now routinely used as part of a validated suite of tools to support outbreak investigations in Canada. While IRIDA was designed to serve the needs of the Canadian public health system, it is generally applicable to any public health and multi-jurisdictional environment. IRIDA enables localized analyses but provides mechanisms and standard outputs to enable data sharing. This approach can help overcome pervasive challenges in real-time global infectious disease surveillance, investigation and control, resulting in faster responses, and ultimately, better public health outcomes.DATA SUMMARYData used to generate some of the figures in this manuscript can be found in the NCBI BioProject PRJNA305824.

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Resource Allocation through Scheduling Optimization

Advances in IT Personnel and Project Management - Modern Techniques for Successful IT Project Management ◽

10.4018/978-1-4666-7473-8.ch001 ◽

2015 ◽

pp. 1-20 ◽

Cited By ~ 1

Author(s):

Michael A. Chilton

Keyword(s):

Resource Allocation ◽

Optimal Schedule ◽

Leading Edge ◽

Project Managers ◽

Scheduling Optimization ◽

Schedule Optimization ◽

New Information ◽

Project Failures ◽

Technology Applications ◽

User Friendly

Project management is especially critical when developing new information technology applications as there have been many project failures due to lost time and wasted effort (cf. e.g., Nelson, 2007). Despite a vast amount of research, this continues to be a problem. Even though Information Systems can involve leading edge technology, it seems to be lacking in its risk management abilities (Kappelman et al., 2006). Poor scheduling seems to be at the top of the causal ladder and Project Managers (PMs) often spend much of their time attending to the details of the schedule instead of dealing with the issues critical to the project that arise as the work progresses. This chapter is devoted to resource allocation, which the authors believe can be achieved through schedule optimization. The authors introduce a user-friendly program that provides an optimal schedule and takes into account the constraints imposed by having a limited number of resources.

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