COBWEB technology platform and future development needs, ISPRA 2016COBWEB Project
COBWEB is a European Commission-funded research project that developed a generic crowdsourcing infrastructure called the Citizen Observatory Web. The COBWEB framework allows for co-design of mobile applications to collect environmental data from citizens. It provides tools for quality assurance of citizen-sourced data and publishing data using open standards. The project is working to open source components of the COBWEB framework and synchronize work with other groups to promote adoption of geospatial standards for citizen science data.
COBWEB A quality assurance workflow authoring tool for citizen science and cr...COBWEB Project
This document describes a quality assurance workflow authoring tool for citizen science and crowd-sourced data. The tool aims to integrate authoritative and crowd-sourced data by bringing together a structured, standards-based institutional approach with a citizen-focused, timely crowd-sourced approach. The tool uses a BPMN-based workflow to chain OGC Web Processing Services for quality control processes. This allows stakeholders to design customizable QA workflows by selecting from a repository of generic quality control processes.
COBWEB: Towards an Optimised Interoperability Framework for Citizen ScienceCOBWEB Project
Presented by Ingo Simonis and Rob Atkinson (OGC-Europe) at the COBWEB Summit, a side event of the Open Geospatial Constorium's (OGC) 99th Technical & Planning Committee (TC/PC) Meeting held at University College Dublin, 2016.
Big data mega surveys pushing the boundariesGeodata AS
This document discusses using Geocap software to handle large volumes of seismic data and generate grids from multiple data sources. It provides two examples: a Barents Sea project combining 34 3D surveys and 173 2D surveys, and a North Sea mega-survey annually updating a grid from public and proprietary 3D data covering 138,000 km2. Geocap allows merging seeds, horizons, and grids from different data, performing gridding and operations between grids, and integrating results into ArcGIS for illustration and delivery to clients.
Source code analysis tools are designed to analyze code artifacts with different intents, which span from improving the quality and security of the software to easing refactoring and reverse engineering activities. However, most tools do not come with features to periodically schedule their analysis or to be executed on a battery of repositories, and lack support to combine their results with other analysis tools. Thus, researchers and practitioners are often forced to develop ad-hoc scripts to meet their needs. This comes at the risk of obtaining wrong results (because of the lack of testing) and of hindering replication by other research teams. In addition, the resulting scripts are often not meant to be customized nor designed for incrementality, scalability and extensibility. In this paper we present Graal, which empowers users with a customizable, scalable and incremental approach to conduct source code analysis and enables relating the obtained results with other software project data. Graal leverages on and extends the functionalities of GrimoireLab, a strong free software tool developed by Bitergia, a company devoted to offer commercial software development analytics, and part of the CHAOSS project of the Linux Foundation.
This document discusses improving reproducibility and transparency in scholarly publishing by rewarding open sharing of data, methods, and results. It presents a case study using the ISA framework to describe experimental data and workflows, nanopublications to make assertions from results, and research objects to aggregate these scholarly artifacts. Combining these approaches could help address issues like increasing retractions by incentivizing open review, replication of analyses, and credit for sharing diverse scholarly contributions beyond publications. The document advocates extending this case study to provide community guidelines for integrated use of these models.
Amines Biotech Private Limited is an enterprising Indian company established in 2003 that specializes in manufacturing and exporting herbal extracts, essential oils, activated carbon powders, and Ayurvedic products. It employs up to 10 people and is located in Vadodara, Gujarat. The company aims to improve its product range and expand its global market reach.
COBWEB technology platform and future development needs, ISPRA 2016COBWEB Project
COBWEB is a European Commission-funded research project that developed a generic crowdsourcing infrastructure called the Citizen Observatory Web. The COBWEB framework allows for co-design of mobile applications to collect environmental data from citizens. It provides tools for quality assurance of citizen-sourced data and publishing data using open standards. The project is working to open source components of the COBWEB framework and synchronize work with other groups to promote adoption of geospatial standards for citizen science data.
COBWEB A quality assurance workflow authoring tool for citizen science and cr...COBWEB Project
This document describes a quality assurance workflow authoring tool for citizen science and crowd-sourced data. The tool aims to integrate authoritative and crowd-sourced data by bringing together a structured, standards-based institutional approach with a citizen-focused, timely crowd-sourced approach. The tool uses a BPMN-based workflow to chain OGC Web Processing Services for quality control processes. This allows stakeholders to design customizable QA workflows by selecting from a repository of generic quality control processes.
COBWEB: Towards an Optimised Interoperability Framework for Citizen ScienceCOBWEB Project
Presented by Ingo Simonis and Rob Atkinson (OGC-Europe) at the COBWEB Summit, a side event of the Open Geospatial Constorium's (OGC) 99th Technical & Planning Committee (TC/PC) Meeting held at University College Dublin, 2016.
Big data mega surveys pushing the boundariesGeodata AS
This document discusses using Geocap software to handle large volumes of seismic data and generate grids from multiple data sources. It provides two examples: a Barents Sea project combining 34 3D surveys and 173 2D surveys, and a North Sea mega-survey annually updating a grid from public and proprietary 3D data covering 138,000 km2. Geocap allows merging seeds, horizons, and grids from different data, performing gridding and operations between grids, and integrating results into ArcGIS for illustration and delivery to clients.
Source code analysis tools are designed to analyze code artifacts with different intents, which span from improving the quality and security of the software to easing refactoring and reverse engineering activities. However, most tools do not come with features to periodically schedule their analysis or to be executed on a battery of repositories, and lack support to combine their results with other analysis tools. Thus, researchers and practitioners are often forced to develop ad-hoc scripts to meet their needs. This comes at the risk of obtaining wrong results (because of the lack of testing) and of hindering replication by other research teams. In addition, the resulting scripts are often not meant to be customized nor designed for incrementality, scalability and extensibility. In this paper we present Graal, which empowers users with a customizable, scalable and incremental approach to conduct source code analysis and enables relating the obtained results with other software project data. Graal leverages on and extends the functionalities of GrimoireLab, a strong free software tool developed by Bitergia, a company devoted to offer commercial software development analytics, and part of the CHAOSS project of the Linux Foundation.
This document discusses improving reproducibility and transparency in scholarly publishing by rewarding open sharing of data, methods, and results. It presents a case study using the ISA framework to describe experimental data and workflows, nanopublications to make assertions from results, and research objects to aggregate these scholarly artifacts. Combining these approaches could help address issues like increasing retractions by incentivizing open review, replication of analyses, and credit for sharing diverse scholarly contributions beyond publications. The document advocates extending this case study to provide community guidelines for integrated use of these models.
Amines Biotech Private Limited is an enterprising Indian company established in 2003 that specializes in manufacturing and exporting herbal extracts, essential oils, activated carbon powders, and Ayurvedic products. It employs up to 10 people and is located in Vadodara, Gujarat. The company aims to improve its product range and expand its global market reach.
Our organization Puneet Laboratories Pvt. Ltd. Mumbai, incepted in 1986 is the most reliable firm engaged in manufacturing, supplying and exporting of an impeccable range of Health care, Nutraceutical & Herbal Products. We provide Zinc Carnosine Capsules, L-Carnosine Capsules, Inositol Hexanicotinate IHN Capsules, Albaquin (Monobenzone cream) for skin whitening, Skin Ointment, Monobenzone Powder, Vitiligo, Anti Aging Supplements, Food Supplement, Health Supplement, Multi Mineral Capsules, Iron Supplements, Iron Capsules, Fish Oil Capsules, Dietary Supplement, Flax Seed Oil Capsules, Flaxseed Oil Softgel Capsules, Multivitamin Softgels, Vitamin K2 - MK7 Capsules and Zinc Carnosine Gel. All our products are formulated using high quality ingredients and advent tools & technology for their effective results.
With the assistance of our skilled professionals, we manufacture, supply, wholesale, export and install a wide assortment of Heat Pump Systems, Water Source Heat Pumps and various others. These products are widely demanded by the clients for their hassle free performance.
We, Unique SPM, established our presence in 2008 as a manufacturer of a wide array of Broaching Machines and Hydraulic Cylinders. Our offered range comprises of Broaching Machines, Leak Testing Machines and Special Purpose Machines. Within a limited time span, we have been able to attain a commendable reputation in the industry by offering products of unparalleled quality and functionality.
Distributor of electronic, electrical and Industrial components like Electrical Fastener, Control Gear & Switch Gear, Circuit Breakers, IC & Component Sockets
Manufacturing and Supplying of a comprehensive array of Electrical equipments in the domestic industry. Highly accredited for a quality focused range of products, we are offering a huge gamut of products which imcludes Single Phase Manual Variac, Three Phase Manual Variac, Motorized Variac, D.C Motor, D.C Panel, Isolation Transformer and Servo Voltage Stabilizer.
Wink Lifestyles Pvt. Ltd. is an importer, supplier, distributor and retailer of eyewear products established in 2013. It offers a wide range of sunglasses, eyewear display stands and racks. The products are procured from reliable vendors and manufactured using premium quality materials. Wink Lifestyles works with international brands and supplies products to retail outlets and optical stores.
Scott Edmunds: Channeling the Deluge: Reproducibility & Data Dissemination in...GigaScience, BGI Hong Kong
Scott Edmunds talk at the 7th Internation Conference on Genomics: "Channeling the Deluge: Reproducibility & Data Dissemination in the “Big-Data” Era. ICG7, Hong Kong 1st December 2012
"
GigaScience Editor-in-Chief Laurie Goodman's talk at the International Conference on Genomics pre-conference press-session on the release of new unpublished datasets, and a new look beta version of their database: GigaDB.org
We are engaged in offering an amalgamation of world class products to our esteemed clients. The Wooden Veneer flex box packaging is a novel concept, the Tabata Golf Tees & Accessories are a world renowned product from Japan, the Sweetcover Laptop Cases and pockets a successful brand from France and the Corbel range of photo frames have a distinct element about them.
Channel Co-operation - A Distant Dream?Richard Tubb
The slides from an interactive session I delivered to the CompTIA UK Channel Community in Cardiff on Wednesday July 17th, 2013.
"This session delivers guidance and advice on how to minimise conflict and build successful Channel relationships. Why? So you can make more money! Former MSP owner Richard Tubb will tell how he grew his business through building strong Vendor relationships and share real-world practical tips that can be taken away and used to help you forge stronger Channel relationships yourself."
Global Network Advancement Group - Next Generation Network-Integrated SystemsLarry Smarr
This document summarizes a presentation on global petascale to exascale workflows for data intensive sciences. It discusses a partnership convened by the GNA-G Data Intensive Sciences Working Group with the mission of meeting challenges faced by data-intensive science programs. Cornerstone concepts that will be demonstrated include integrated network and site resource management, model-driven frameworks for resource orchestration, end-to-end monitoring with machine learning-optimized data transfers, and integrating Qualcomm's GradientGraph with network services to optimize applications and science workflows.
This document provides an overview and introduction to grid computing concepts. It discusses the benefits of grid computing such as exploiting underutilized resources and enabling collaboration. It also describes some key computational grid projects including a national fusion grid pilot project. The document outlines the layered architecture of grid systems and references some foundational projects and standards like Globus Toolkit and Global Grid Forum. Finally, it introduces the concepts of OGSA and OGSI which provide standard interfaces and behaviors for distributed system management in grid environments.
OpenACC and Hackathons Monthly Highlights: April 2023OpenACC
Stay up-to-date on the latest news, research and resources. This month's edition covers the Open Hackathon Mentor Program, highlight from the recent UK National Hackathon, upcoming Open Hackathon and Bootcamp events, and more!
2015 FOSS4G Track: Open Specifications for the Storage, Transport and Process...GIS in the Rockies
This talk presents an overview of some of the most important Open Specifications (OS) for the storage, transport and processing of geospatial data and why they matter for the development of the next generation of geospatial systems and data infrastructures. What is the importance of being Open? What is the relationship of OS and geospatial software (both FOSS4G and private/proprietary software)? A Web-based system architecture based on OS and FOSS4G will be presented.
Overview of Indiana University's Advanced Science Gateway support activities for drug discovery, computational chemistry, and other Web portals. For a broader overview of the OGCE project, see http://www.collab-ogce.org/ogce/index.php
This document outlines a presentation on developing a suite of semantically interoperable biomedical natural language processing (BioNLP) services using the Semantic Automated Discovery and Integration (SADI) framework. The presentation covers the motivation for the work due to the large amount of biomedical literature being produced, an overview of the proposed system architecture and components, including ontology development and SADI services, and a demonstration of the system. Experimental results showing the system can accurately extract requested information from text are also discussed. The presentation concludes by discussing future work to improve system performance.
Our organization Puneet Laboratories Pvt. Ltd. Mumbai, incepted in 1986 is the most reliable firm engaged in manufacturing, supplying and exporting of an impeccable range of Health care, Nutraceutical & Herbal Products. We provide Zinc Carnosine Capsules, L-Carnosine Capsules, Inositol Hexanicotinate IHN Capsules, Albaquin (Monobenzone cream) for skin whitening, Skin Ointment, Monobenzone Powder, Vitiligo, Anti Aging Supplements, Food Supplement, Health Supplement, Multi Mineral Capsules, Iron Supplements, Iron Capsules, Fish Oil Capsules, Dietary Supplement, Flax Seed Oil Capsules, Flaxseed Oil Softgel Capsules, Multivitamin Softgels, Vitamin K2 - MK7 Capsules and Zinc Carnosine Gel. All our products are formulated using high quality ingredients and advent tools & technology for their effective results.
With the assistance of our skilled professionals, we manufacture, supply, wholesale, export and install a wide assortment of Heat Pump Systems, Water Source Heat Pumps and various others. These products are widely demanded by the clients for their hassle free performance.
We, Unique SPM, established our presence in 2008 as a manufacturer of a wide array of Broaching Machines and Hydraulic Cylinders. Our offered range comprises of Broaching Machines, Leak Testing Machines and Special Purpose Machines. Within a limited time span, we have been able to attain a commendable reputation in the industry by offering products of unparalleled quality and functionality.
Distributor of electronic, electrical and Industrial components like Electrical Fastener, Control Gear & Switch Gear, Circuit Breakers, IC & Component Sockets
Manufacturing and Supplying of a comprehensive array of Electrical equipments in the domestic industry. Highly accredited for a quality focused range of products, we are offering a huge gamut of products which imcludes Single Phase Manual Variac, Three Phase Manual Variac, Motorized Variac, D.C Motor, D.C Panel, Isolation Transformer and Servo Voltage Stabilizer.
Wink Lifestyles Pvt. Ltd. is an importer, supplier, distributor and retailer of eyewear products established in 2013. It offers a wide range of sunglasses, eyewear display stands and racks. The products are procured from reliable vendors and manufactured using premium quality materials. Wink Lifestyles works with international brands and supplies products to retail outlets and optical stores.
Scott Edmunds: Channeling the Deluge: Reproducibility & Data Dissemination in...GigaScience, BGI Hong Kong
Scott Edmunds talk at the 7th Internation Conference on Genomics: "Channeling the Deluge: Reproducibility & Data Dissemination in the “Big-Data” Era. ICG7, Hong Kong 1st December 2012
"
GigaScience Editor-in-Chief Laurie Goodman's talk at the International Conference on Genomics pre-conference press-session on the release of new unpublished datasets, and a new look beta version of their database: GigaDB.org
We are engaged in offering an amalgamation of world class products to our esteemed clients. The Wooden Veneer flex box packaging is a novel concept, the Tabata Golf Tees & Accessories are a world renowned product from Japan, the Sweetcover Laptop Cases and pockets a successful brand from France and the Corbel range of photo frames have a distinct element about them.
Channel Co-operation - A Distant Dream?Richard Tubb
The slides from an interactive session I delivered to the CompTIA UK Channel Community in Cardiff on Wednesday July 17th, 2013.
"This session delivers guidance and advice on how to minimise conflict and build successful Channel relationships. Why? So you can make more money! Former MSP owner Richard Tubb will tell how he grew his business through building strong Vendor relationships and share real-world practical tips that can be taken away and used to help you forge stronger Channel relationships yourself."
Global Network Advancement Group - Next Generation Network-Integrated SystemsLarry Smarr
This document summarizes a presentation on global petascale to exascale workflows for data intensive sciences. It discusses a partnership convened by the GNA-G Data Intensive Sciences Working Group with the mission of meeting challenges faced by data-intensive science programs. Cornerstone concepts that will be demonstrated include integrated network and site resource management, model-driven frameworks for resource orchestration, end-to-end monitoring with machine learning-optimized data transfers, and integrating Qualcomm's GradientGraph with network services to optimize applications and science workflows.
This document provides an overview and introduction to grid computing concepts. It discusses the benefits of grid computing such as exploiting underutilized resources and enabling collaboration. It also describes some key computational grid projects including a national fusion grid pilot project. The document outlines the layered architecture of grid systems and references some foundational projects and standards like Globus Toolkit and Global Grid Forum. Finally, it introduces the concepts of OGSA and OGSI which provide standard interfaces and behaviors for distributed system management in grid environments.
OpenACC and Hackathons Monthly Highlights: April 2023OpenACC
Stay up-to-date on the latest news, research and resources. This month's edition covers the Open Hackathon Mentor Program, highlight from the recent UK National Hackathon, upcoming Open Hackathon and Bootcamp events, and more!
2015 FOSS4G Track: Open Specifications for the Storage, Transport and Process...GIS in the Rockies
This talk presents an overview of some of the most important Open Specifications (OS) for the storage, transport and processing of geospatial data and why they matter for the development of the next generation of geospatial systems and data infrastructures. What is the importance of being Open? What is the relationship of OS and geospatial software (both FOSS4G and private/proprietary software)? A Web-based system architecture based on OS and FOSS4G will be presented.
Overview of Indiana University's Advanced Science Gateway support activities for drug discovery, computational chemistry, and other Web portals. For a broader overview of the OGCE project, see http://www.collab-ogce.org/ogce/index.php
This document outlines a presentation on developing a suite of semantically interoperable biomedical natural language processing (BioNLP) services using the Semantic Automated Discovery and Integration (SADI) framework. The presentation covers the motivation for the work due to the large amount of biomedical literature being produced, an overview of the proposed system architecture and components, including ontology development and SADI services, and a demonstration of the system. Experimental results showing the system can accurately extract requested information from text are also discussed. The presentation concludes by discussing future work to improve system performance.
IDB-Cloud Providing Bioinformatics Services on Cloudstratuslab
A presentation of IDB (Infrastructure Distributed for Biology) using StratusLab technology by Christophe Blanchet and Clément Gauthey at Lille, France, May 2013.
This presentation was given at the GlobusWorld 2020 Virtual Conference, by Ian Foster, Rachana Ananthakrishnan, and Vas Vasiliadis from the University of Chicago.
The document discusses Open Gateway Computing Environments (OGCE) and its software components. OGCE develops secure web-based science gateways for fields like chemistry, bioinformatics, biophysics, and environmental sciences. It is funded by the NSF. Key OGCE software includes the Gadget Container, GFAC for invoking scientific applications on grids and clouds, and workflow tools. Partners include Indiana University, NCSA, Purdue University, and UTHSCSA. The document provides examples of OGCE components in action, like UltraScan, GridChem, and BioVLAB. It also discusses building simple grid gadgets and computational chemistry workflows with GridChem.
Validation of services, data and metadataLuis Bermudez
Now days organizations are making available data (e.g. vector data, rasters) via web services, that follow open standards and are easier to integrate with other data. Validation of these services is important to guarantee that clients (e.g. web portals, mobile applications) can properly discover and download the data that a user needs. Validation can also serve as curation process to improve discovery on registries [1][2] or for certification purposes [3]. This session will provide an overview and a demo of the Open Geospatial Consortium (OGC) Validation tools. The participants will understand how to invoke a test and install the tools in their own environment. The validation tools are used to test servers, data and clients. The tests can be customized to not only test implementations against OGC standards but also community profiles. The validation engine and the tests are available as open source in GitHub.
[1] ESIP Discovery Cluster Testbed: Validate and Relate Data & Services - Draft - http://commons.esipfed.org/node/406
[2] Community Inventory of EarthCube Resources for Geosciences Interoperability - http://earthcube.org/group/cinergi
[3] OCG Validation Website - http://cite.opengeospatial.org/teamengine/
OpenACC and Open Hackathons Monthly Highlights June 2022.pdfOpenACC
Stay up-to-date with the OpenACC and Open Hackathons Monthly Highlights. June’s edition covers the 2022 OpenACC and Hackathons Summit, NSF’s Traineeship Program, NVIDIA’s Academic Hardware Grant program, upcoming Open Hackathons and Bootcamps, recent research, new resources, and more!
This document discusses tools for improving reproducibility in research, including hosting data in GigaDB, sharing images using OMERO, implementing workflows using Galaxy and executable documents, and sharing virtual machines. It emphasizes the need for publishers to host and curate research objects like data, code, and workflows and provide citations for reproducible research. Key tools highlighted are GigaDB for data hosting, OMERO for image hosting, Galaxy for implementing workflows, and virtual machines for sharing full computational environments.
This document provides an overview of next generation sequencing (NGS) analysis. It discusses various NGS platforms such as Illumina, Roche 454, PacBio, and Ion Torrent. It also covers common file formats for sequencing data like FASTQ, quality control measures to assess data quality, and applications of NGS such as RNA-seq and ChIP-seq. The document aims to introduce researchers to basic concepts in NGS analysis and highlights available resources for storing and analyzing large sequencing datasets.
Similar to Tin-Lap Lee: Next-Gen Sequencing Analysis by GigaGalaxy (20)
IDW2022: A decades experiences in transparent and interactive publication of ...GigaScience, BGI Hong Kong
Scott Edmunds at International Data Week 2022: A decades experiences in transparent and interactive publication of FAIR data and software via an end-to-end XML publishing platform. 21st June 2022
GigaByte Chief Editor Scott Edmunds presents on how to prepare a data paper for the TDR and WHO sponsored call for data papers describing datasets on vectors of human diseases launched in Nov 2021. Presented at the GBIF webinar on 25th January 2022 and aimed at authors interested in submitting a manuscript submitted to the series.
STM Week: Demonstrating bringing publications to life via an End-to-end XML p...GigaScience, BGI Hong Kong
The document discusses the challenges of urgent research needs around climate change and disease pandemics. It proposes that scientific publishing needs to change to better disseminate information openly and quickly in a trusted peer-reviewed form, while also sharing underlying data and methods. A new open-access journal called GigaByte is presented that uses an XML-based publishing platform to allow dynamic and machine-readable publication of research in an effort to address these challenges. Key features include streamlined review and publication processes, as well as embedding interactive content and using persistent identifiers.
Scott Edmunds: A new publishing workflow for rapid dissemination of genomes u...GigaScience, BGI Hong Kong
Scott Edmunds on a new publishing workflow for rapid dissemination of genomes using GigaByte & GigaDB. Presented at Biodiversity 2020 in the Annotation & Databases track, 9th October 2020.
Scott Edmunds: Quantifying how FAIR is Hong Kong: The Hong Kong Shareability ...GigaScience, BGI Hong Kong
Scot Edmunds talk at CODATA2019 on Quantifying how FAIR is Hong Kong: The Hong Kong Shareability of Hong Kong University Research Experiment. 19th September 2019 in Beijing
Scott Edmunds talk at IARC: How can we make science more trustworthy and FAIR...GigaScience, BGI Hong Kong
Scott Edmunds talk at IARC, Lyon. How can we make science more trustworthy and FAIR? Principled publishing for more evidence based research. 8th July 2019
PAGAsia19 - The Digitalization of Ruili Botanical Garden Project: Production...GigaScience, BGI Hong Kong
A 3 part talk presented at PAG Asia 2019 in Shenzhen- The Digitalization of Ruili Botanical Garden Project: Production, Curation and Re-Use. Presented by Huan Liu (CNGB), Scott Edmunds (GigaScience) & Stephen Tsui (CUHK). 8th June 2019
Democratising biodiversity and genomics research: open and citizen science to...GigaScience, BGI Hong Kong
Scott Edmunds at the China National GeneBank Youth Biodiversity MegaData Forum: Democratising biodiversity and genomics research: open and citizen science to build trust and fill the data gaps. 18th December 2018
Ricardo Wurmus at #ICG13: Reproducible genomics analysis pipelines with GNU Guix. Presented at the GigaScience Prize Track at the International Conference on Genomics, Shezhen 26th October 2018
Paul Pavlidis at #ICG13: Monitoring changes in the Gene Ontology and their im...GigaScience, BGI Hong Kong
This document discusses how changes over time to the Gene Ontology (GO) and GO annotations can impact genomic data analysis and enrichment results. The author analyzed over 2,500 gene lists from past studies and found that enrichment results become less semantically similar over time, with 47% having less similar results after 11 years on average compared to the initial time of publication. While objective changes may occur, subjective impressions of results can remain the same. Researchers are encouraged to use the GOtrack database to evaluate how changes may affect their own data and results.
Stefan Prost at #ICG13: Genome analyses show strong selection on coloration, ...GigaScience, BGI Hong Kong
Stefan Prost presentation for the #ICG13 GigaScience Prize Track: Genome analyses show strong selection on coloration, morphological and behavioral phenotypes in birds-of-paradise. Shenzhen, 26th October, 2018
Lisa Johnson at #ICG13: Re-assembly, quality evaluation, and annotation of 67...GigaScience, BGI Hong Kong
Lisa Johnson's talk at the #ICG13 GigaScience Prize Track: Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes. Shenzhen, 26th October 2018
Democratising Data Publishing: A Global Perspective discusses the need for open and fair data globally to tackle problems more efficiently through collaboration. Some challenges to open data include cultural and technical hurdles to data sharing, as well as concerns about funding open access models internationally. The document provides examples of initiatives by GigaScience and the African Orphan Crop Consortium to make large genomic datasets more accessible and usable for researchers and plant breeders through tools like Galaxy. While bandwidth and agreements can pose difficulties, opening data benefits research and finding solutions to issues like food security.
Reproducible method and benchmarking publishing for the data (and evidence) d...GigaScience, BGI Hong Kong
Scott Edmunds presentation on: Reproducible method and benchmarking publishing for the data (and evidence) driven era. The Silk Road Forensics Conference, Yantai, 18th September 2018
Mary Ann Tuli: What MODs can learn from Journals – a GigaDB curator’s perspec...GigaScience, BGI Hong Kong
Mary Ann Tuli's talk at the International Society of Biocuration meeting : What MODs can learn from Journals – a GigaDB curator’s perspective. Shanghai 9th April 2018
Securing your Kubernetes cluster_ a step-by-step guide to success !KatiaHIMEUR1
Today, after several years of existence, an extremely active community and an ultra-dynamic ecosystem, Kubernetes has established itself as the de facto standard in container orchestration. Thanks to a wide range of managed services, it has never been so easy to set up a ready-to-use Kubernetes cluster.
However, this ease of use means that the subject of security in Kubernetes is often left for later, or even neglected. This exposes companies to significant risks.
In this talk, I'll show you step-by-step how to secure your Kubernetes cluster for greater peace of mind and reliability.
A tale of scale & speed: How the US Navy is enabling software delivery from l...sonjaschweigert1
Rapid and secure feature delivery is a goal across every application team and every branch of the DoD. The Navy’s DevSecOps platform, Party Barge, has achieved:
- Reduction in onboarding time from 5 weeks to 1 day
- Improved developer experience and productivity through actionable findings and reduction of false positives
- Maintenance of superior security standards and inherent policy enforcement with Authorization to Operate (ATO)
Development teams can ship efficiently and ensure applications are cyber ready for Navy Authorizing Officials (AOs). In this webinar, Sigma Defense and Anchore will give attendees a look behind the scenes and demo secure pipeline automation and security artifacts that speed up application ATO and time to production.
We will cover:
- How to remove silos in DevSecOps
- How to build efficient development pipeline roles and component templates
- How to deliver security artifacts that matter for ATO’s (SBOMs, vulnerability reports, and policy evidence)
- How to streamline operations with automated policy checks on container images
Maruthi Prithivirajan, Head of ASEAN & IN Solution Architecture, Neo4j
Get an inside look at the latest Neo4j innovations that enable relationship-driven intelligence at scale. Learn more about the newest cloud integrations and product enhancements that make Neo4j an essential choice for developers building apps with interconnected data and generative AI.
“An Outlook of the Ongoing and Future Relationship between Blockchain Technologies and Process-aware Information Systems.” Invited talk at the joint workshop on Blockchain for Information Systems (BC4IS) and Blockchain for Trusted Data Sharing (B4TDS), co-located with with the 36th International Conference on Advanced Information Systems Engineering (CAiSE), 3 June 2024, Limassol, Cyprus.
GridMate - End to end testing is a critical piece to ensure quality and avoid...ThomasParaiso2
End to end testing is a critical piece to ensure quality and avoid regressions. In this session, we share our journey building an E2E testing pipeline for GridMate components (LWC and Aura) using Cypress, JSForce, FakerJS…
UiPath Test Automation using UiPath Test Suite series, part 6DianaGray10
Welcome to UiPath Test Automation using UiPath Test Suite series part 6. In this session, we will cover Test Automation with generative AI and Open AI.
UiPath Test Automation with generative AI and Open AI webinar offers an in-depth exploration of leveraging cutting-edge technologies for test automation within the UiPath platform. Attendees will delve into the integration of generative AI, a test automation solution, with Open AI advanced natural language processing capabilities.
Throughout the session, participants will discover how this synergy empowers testers to automate repetitive tasks, enhance testing accuracy, and expedite the software testing life cycle. Topics covered include the seamless integration process, practical use cases, and the benefits of harnessing AI-driven automation for UiPath testing initiatives. By attending this webinar, testers, and automation professionals can gain valuable insights into harnessing the power of AI to optimize their test automation workflows within the UiPath ecosystem, ultimately driving efficiency and quality in software development processes.
What will you get from this session?
1. Insights into integrating generative AI.
2. Understanding how this integration enhances test automation within the UiPath platform
3. Practical demonstrations
4. Exploration of real-world use cases illustrating the benefits of AI-driven test automation for UiPath
Topics covered:
What is generative AI
Test Automation with generative AI and Open AI.
UiPath integration with generative AI
Speaker:
Deepak Rai, Automation Practice Lead, Boundaryless Group and UiPath MVP
Goodbye Windows 11: Make Way for Nitrux Linux 3.5.0!SOFTTECHHUB
As the digital landscape continually evolves, operating systems play a critical role in shaping user experiences and productivity. The launch of Nitrux Linux 3.5.0 marks a significant milestone, offering a robust alternative to traditional systems such as Windows 11. This article delves into the essence of Nitrux Linux 3.5.0, exploring its unique features, advantages, and how it stands as a compelling choice for both casual users and tech enthusiasts.
GraphSummit Singapore | The Future of Agility: Supercharging Digital Transfor...Neo4j
Leonard Jayamohan, Partner & Generative AI Lead, Deloitte
This keynote will reveal how Deloitte leverages Neo4j’s graph power for groundbreaking digital twin solutions, achieving a staggering 100x performance boost. Discover the essential role knowledge graphs play in successful generative AI implementations. Plus, get an exclusive look at an innovative Neo4j + Generative AI solution Deloitte is developing in-house.
Removing Uninteresting Bytes in Software FuzzingAftab Hussain
Imagine a world where software fuzzing, the process of mutating bytes in test seeds to uncover hidden and erroneous program behaviors, becomes faster and more effective. A lot depends on the initial seeds, which can significantly dictate the trajectory of a fuzzing campaign, particularly in terms of how long it takes to uncover interesting behaviour in your code. We introduce DIAR, a technique designed to speedup fuzzing campaigns by pinpointing and eliminating those uninteresting bytes in the seeds. Picture this: instead of wasting valuable resources on meaningless mutations in large, bloated seeds, DIAR removes the unnecessary bytes, streamlining the entire process.
In this work, we equipped AFL, a popular fuzzer, with DIAR and examined two critical Linux libraries -- Libxml's xmllint, a tool for parsing xml documents, and Binutil's readelf, an essential debugging and security analysis command-line tool used to display detailed information about ELF (Executable and Linkable Format). Our preliminary results show that AFL+DIAR does not only discover new paths more quickly but also achieves higher coverage overall. This work thus showcases how starting with lean and optimized seeds can lead to faster, more comprehensive fuzzing campaigns -- and DIAR helps you find such seeds.
- These are slides of the talk given at IEEE International Conference on Software Testing Verification and Validation Workshop, ICSTW 2022.
Generative AI Deep Dive: Advancing from Proof of Concept to ProductionAggregage
Join Maher Hanafi, VP of Engineering at Betterworks, in this new session where he'll share a practical framework to transform Gen AI prototypes into impactful products! He'll delve into the complexities of data collection and management, model selection and optimization, and ensuring security, scalability, and responsible use.
GraphSummit Singapore | The Art of the Possible with Graph - Q2 2024Neo4j
Neha Bajwa, Vice President of Product Marketing, Neo4j
Join us as we explore breakthrough innovations enabled by interconnected data and AI. Discover firsthand how organizations use relationships in data to uncover contextual insights and solve our most pressing challenges – from optimizing supply chains, detecting fraud, and improving customer experiences to accelerating drug discoveries.
Unlock the Future of Search with MongoDB Atlas_ Vector Search Unleashed.pdfMalak Abu Hammad
Discover how MongoDB Atlas and vector search technology can revolutionize your application's search capabilities. This comprehensive presentation covers:
* What is Vector Search?
* Importance and benefits of vector search
* Practical use cases across various industries
* Step-by-step implementation guide
* Live demos with code snippets
* Enhancing LLM capabilities with vector search
* Best practices and optimization strategies
Perfect for developers, AI enthusiasts, and tech leaders. Learn how to leverage MongoDB Atlas to deliver highly relevant, context-aware search results, transforming your data retrieval process. Stay ahead in tech innovation and maximize the potential of your applications.
#MongoDB #VectorSearch #AI #SemanticSearch #TechInnovation #DataScience #LLM #MachineLearning #SearchTechnology
LF Energy Webinar: Electrical Grid Modelling and Simulation Through PowSyBl -...DanBrown980551
Do you want to learn how to model and simulate an electrical network from scratch in under an hour?
Then welcome to this PowSyBl workshop, hosted by Rte, the French Transmission System Operator (TSO)!
During the webinar, you will discover the PowSyBl ecosystem as well as handle and study an electrical network through an interactive Python notebook.
PowSyBl is an open source project hosted by LF Energy, which offers a comprehensive set of features for electrical grid modelling and simulation. Among other advanced features, PowSyBl provides:
- A fully editable and extendable library for grid component modelling;
- Visualization tools to display your network;
- Grid simulation tools, such as power flows, security analyses (with or without remedial actions) and sensitivity analyses;
The framework is mostly written in Java, with a Python binding so that Python developers can access PowSyBl functionalities as well.
What you will learn during the webinar:
- For beginners: discover PowSyBl's functionalities through a quick general presentation and the notebook, without needing any expert coding skills;
- For advanced developers: master the skills to efficiently apply PowSyBl functionalities to your real-world scenarios.
Climate Impact of Software Testing at Nordic Testing DaysKari Kakkonen
My slides at Nordic Testing Days 6.6.2024
Climate impact / sustainability of software testing discussed on the talk. ICT and testing must carry their part of global responsibility to help with the climat warming. We can minimize the carbon footprint but we can also have a carbon handprint, a positive impact on the climate. Quality characteristics can be added with sustainability, and then measured continuously. Test environments can be used less, and in smaller scale and on demand. Test techniques can be used in optimizing or minimizing number of tests. Test automation can be used to speed up testing.
zkStudyClub - Reef: Fast Succinct Non-Interactive Zero-Knowledge Regex ProofsAlex Pruden
This paper presents Reef, a system for generating publicly verifiable succinct non-interactive zero-knowledge proofs that a committed document matches or does not match a regular expression. We describe applications such as proving the strength of passwords, the provenance of email despite redactions, the validity of oblivious DNS queries, and the existence of mutations in DNA. Reef supports the Perl Compatible Regular Expression syntax, including wildcards, alternation, ranges, capture groups, Kleene star, negations, and lookarounds. Reef introduces a new type of automata, Skipping Alternating Finite Automata (SAFA), that skips irrelevant parts of a document when producing proofs without undermining soundness, and instantiates SAFA with a lookup argument. Our experimental evaluation confirms that Reef can generate proofs for documents with 32M characters; the proofs are small and cheap to verify (under a second).
Paper: https://eprint.iacr.org/2023/1886
Tin-Lap Lee: Next-Gen Sequencing Analysis by GigaGalaxy
1. Next-Gen Sequencing Analysis
by GigaGalaxy
Tin-Lap, LEE
School of Biomedical Sciences
CUHK-BGI Innovation Institute of Trans-omics,
The Chinese University of Hong Kong
2. CUHK-BGI Innovation Institute of Trans-Omics (CBIIT)
• Jointly established between The Chinese
University of Hong Kong (CUHK) and BGI
in July 2011.
• “We aim to provide a platform conductive
to training of multi-disciplinary talents
conversant with the knowledge and
application of genomics, proteomics,
genetics, computation biology and
bioinformatics, by capitalizing on both
institutions’ expertise and strengths in
genomic science.”
4. www.gigasciencejournal.com
Journal, data-platform and
database for large-scale data
Editor-in-Chief: Laurie Goodman
Executive Editor: Scott Edmunds
Commissioning Editor: Nicole Nogoy
Lead Curator: Chris Hunter
Data Platform: Peter Li
in conjunction with
6. Giga-Galaxy
Collaboration between GigaScience and CBIIT
A publicly accessible Galaxy Servers
Share some of the workload of the main Galaxy server
Host data and workflows published in GigaScience, particularly involving
NGS data analysis
SOAP package: advantages from GigaGalaxy
Application Instance: SOAPdenovo2 tool
9. GigaSolution: deconstructing the paper
www.gigadb.org
www.gigasciencejournal.com
galaxy.cbiit.cuhk.edu.hk
Combines and integrates:
Open-access journal
Data Publishing Platform
Data Analysis Platform
10. doi:10.1186/2047-217X-1-18doi:10.5524/100038
AnalysisData Methods
doi:10.5524/100044+ =
Wang J et al., (2012): Updated genome assembly of YH: the first diploid genome sequence of a
Han Chinese individual (version 2, 07/2012). GigaScience Database.
http://dx.doi.org/10.5524/100038
Luo R et al., (2012): Software and supporting material for “SOAPdenovo2: An empirically improved
memory-efficient short read de novo assembly”. GigaScience Database.
http://dx.doi.org/10.5524/100044
Data
Methods
Luo R et al., (2012): SOAPdenovo2: an empirically improved memory-efficient short-read de novo
assembler GigaScience, 1:18 (28th December 2012) http://dx.doi.org/10.1186/2047-217X-1-18
Analysis
Example
17. Assembly Supporting Tools
• SOAPfilter: removed reads with artifacts
• Kmerfreq HA: a kmer frequency counter
• Corrector HA: corrects sequencing errors in short reads
• Gapcloser: close gaps in scaffolds
25. Help Center: Shared Data
• Several Datasets are available from the shared data menu
for test-running the tools.
• Data Libraries
• Published Workflows
• Published Pages
29. How is GigaScience supporting data
reproducibility?
Data sets
Analyses
Open-Paper
Open-Review
DOI:10.1186/2047-217X-1-18
~10000 accesses
Open-Code
8 reviewers tested data in ftp server & named reports published
DOI:10.5524/100044
Open-Pipelines
Open-Workflows
DOI:10.5524/100038
Open-Data
78GB CC0 data
Code in sourceforge under GPLv3: http://soapdenovo2.sourceforge.net/
~5000 downloads
Enabled code to being picked apart by bloggers in wiki
http://homolog.us/wiki/index.php?title=SOAPdenovo2
30. SOAPdenovo2 workflows implemented in
galaxy.cbiit.cuhk.edu.hk
Implemented entire workflow in GigaGalaxy server, inc.:
• 3 pre-processing steps
• 4 SOAPdenovo modules
• 1 post processing steps
• Evaluation and visualization tools
Will be available for >25K Galaxy users in Galaxy Toolshed
Galaxy is a web-based data analysis platform developed by PSUAccessible, Reproducible, and transparentEasy to use, no command line, much shorter learning curve for biologists
The first section of this talk is about implementation of public instance using galaxy tool shed. We are currently implement the first public SOAP instance to the platform.
The SOAP package provides a set of tools for processing NGS data. There are different versions of SOAP for mapping short reads to reference sequences. There are also tools like soapdenovo for construction of a new genome sequence and soapsnp which can assemble a consensus sequence and identify SNPs present on it in relation to a reference. Documentation in the BGI SOAP package is limited in scope, making the tools difficult to use. We will be working with the BGI developers in providing test data and Galaxy pipelines demonstrating the use of SOAP.