Author response: A user-friendly, open-source tool to project impact and cost of diagnostic tests for tuberculosis

ABSTRACTFluorescence micrographs naturally exhibit darkening around their edges (vignetting), which makes seamless stitching challenging. If vignetting is not corrected for, a stitched image will have visible seams where the individual images (tiles) overlap, introducing a systematic error into any quantitative analysis of the image. Although multiple vignetting correction methods exist, there remains no open-source tool that robustly handles large 2D immunofluorescence-based mosaic images. Here, we develop and validate QuickStitch, a tool that applies a recursive normalization algorithm to stitch large-scale immunofluorescence-based mosaics without incurring vignetting seams. We demonstrate how the tool works successfully for tissues of differing size, morphology, and fluorescence intensity. QuickStitch requires no specific information about the imaging system. It is provided as an open-source tool that is both user friendly and extensible, allowing straightforward incorporation into existing image processing pipelines. This enables studies that require accurate segmentation and analysis of high-resolution datasets when parameters of interest include both cellular-level phenomena and larger tissue-level regions of interest.

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An open source tool to compute measures of inpatient glycemic control: translating from healthcare analytics research to clinical quality improvement

JAMIA Open ◽

10.1093/jamiaopen/ooab033 ◽

2021 ◽

Vol 4 (2) ◽

Author(s):

Ying Chen ◽

Yilin Ning ◽

Prem Thomas ◽

Mark Salloway ◽

Maudrene Luor Shyuan Tan ◽

...

Keyword(s):

Glycemic Control ◽

Open Source ◽

Graphical Interface ◽

Prior Work ◽

Healthcare Analytics ◽

Privacy Concerns ◽

Open Source Tool ◽

Extended Code ◽

User Friendly

Abstract Objectives The objective of this study is to facilitate monitoring of the quality of inpatient glycemic control by providing an open-source tool to compute glucometrics. To allay regulatory and privacy concerns, the tool is usable locally; no data are uploaded to the internet. Materials and Methods We extended code, initially developed for healthcare analytics research, to serve the clinical need for quality monitoring of diabetes. We built an application, with a graphical interface, which can be run locally without any internet connection. Results We verified that our code produced results identical to prior work in glucometrics. We extended the prior work by including additional metrics and by providing user customizability. The software has been used at an academic healthcare institution. Conclusion We successfully translated code used for research methods into an open source, user-friendly tool which hospitals may use to expedite quality measure computation for the management of inpatients with diabetes.

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Author response: CaImAn an open source tool for scalable calcium imaging data analysis

10.7554/elife.38173.028 ◽

2018 ◽

Cited By ~ 2

Author(s):

Andrea Giovannucci ◽

Johannes Friedrich ◽

Pat Gunn ◽

Jérémie Kalfon ◽

Brandon L Brown ◽

...

Keyword(s):

Data Analysis ◽

Open Source ◽

Calcium Imaging ◽

Author Response ◽

Imaging Data ◽

Open Source Tool

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MackDroid - An Android based Application to monitor devices

Journal of Communications Technology Electronics and Computer Science ◽

10.22385/jctecs.v9i0.130 ◽

2016 ◽

Vol 9 ◽

pp. 1

Author(s):

Maaz Sirkhot ◽

Ekta Sirwani ◽

Aishwarya Kourani ◽

Akshit Batheja ◽

Kajal Jethanand Jewani

Keyword(s):

Operating System ◽

Open Source ◽

Vital Role ◽

Mobile Users ◽

Android Application ◽

Web Page ◽

Technological World ◽

Monitoring Service ◽

User Friendly

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.

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Dynamic simulation of CIG in large unbalanced distribution systems using an open source tool

IET Generation Transmission & Distribution ◽

10.1049/iet-gtd.2018.6089 ◽

2019 ◽

Vol 13 (9) ◽

pp. 1638-1645 ◽

Cited By ~ 1

Author(s):

Ziwei Yu ◽

Yingying Tang ◽

Tong Yao ◽

Raja Ayyanar

Keyword(s):

Open Source ◽

Dynamic Simulation ◽

Distribution Systems ◽

Open Source Tool

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Assessment of the regionalised demand response potential in Germany using an open source tool and dataset

Advances in Applied Energy ◽

10.1016/j.adapen.2020.100001 ◽

2020 ◽

pp. 100001

Author(s):

Wilko Heitkoetter ◽

Bruno U. Schyska ◽

Danielle Schmidt ◽

Wided Medjroubi ◽

Thomas Vogt ◽

...

Keyword(s):

Open Source ◽

Demand Response ◽

Open Source Tool

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An Interactive WebGIS Framework for Coastal Erosion Risk Management

Journal of Marine Science and Engineering ◽

10.3390/jmse9060567 ◽

2021 ◽

Vol 9 (6) ◽

pp. 567

Author(s):

Alessandra Capolupo ◽

Cristina Monterisi ◽

Alessandra Saponieri ◽

Fabio Addona ◽

Leonardo Damiani ◽

...

Keyword(s):

Open Source ◽

3D Visualization ◽

Erosion Risk ◽

Innovative Strategies ◽

Web Mapping ◽

Natural Processes ◽

Multi Scale ◽

Interactive Interface ◽

Multi Temporal ◽

User Friendly

The Italian coastline stretches over about 8350 km, with 3600 km of beaches, representing a significant resource for the country. Natural processes and anthropic interventions keep threatening its morphology, moulding its shape and triggering soil erosion phenomena. Thus, many scholars have been focusing their work on investigating and monitoring shoreline instability. Outcomes of such activities can be largely widespread and shared with expert and non-expert users through Web mapping. This paper describes the performances of a WebGIS prototype designed to disseminate the results of the Italian project Innovative Strategies for the Monitoring and Analysis of Erosion Risk, known as the STIMARE project. While aiming to include the entire national coastline, three study areas along the regional coasts of Puglia and Emilia Romagna have already been implemented as pilot cases. This WebGIS was generated using Free and Open-Source Software for Geographic information systems (FOSS4G). The platform was designed by combining Apache http server, Geoserver, as open-source server and PostgreSQL (with PostGIS extension) as database. Pure javascript libraries OpenLayers and Cesium were implemented to obtain a hybrid 2D and 3D visualization. A user-friendly interactive interface was programmed to help users visualize and download geospatial data in several formats (pdf, kml and shp), in accordance with the European INSPIRE directives, satisfying both multi-temporal and multi-scale perspectives.

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