scholarly journals Peer Review #2 of "R-DECO: an open-source Matlab based graphical user interface for the detection and correction of R-peaks (v0.1)"

2019 ◽  
Keyword(s):  
User Interface ◽  
Open Source ◽  
Peer Review ◽  
Graphical User Interface

scholarly journals AMi: a GUI-based, open-source system for imaging samples in multi-well plates

2019 ◽  
Vol 75 (8) ◽  
pp. 531-536 ◽  
Author(s):  
Andrew Bohm
Keyword(s):  
User Interface ◽  
Open Source ◽  
Real Time ◽  
Graphical User Interface ◽  
Field Enhancement ◽  
Depth Of Field ◽  
Raspberry Pi ◽  
Real Time Imaging ◽  
Translation Stage ◽  
Multiple Sample

Described here are instructions for building and using an inexpensive automated microscope (AMi) that has been specifically designed for viewing and imaging the contents of multi-well plates. The X, Y, Z translation stage is controlled through dedicated software (AMiGUI) that is being made freely available. Movements are controlled by an Arduino-based board running grbl, and the graphical user interface and image acquisition are controlled via a Raspberry Pi microcomputer running Python. Images can be written to the Raspberry Pi or to a remote disk. Plates with multiple sample wells at each row/column position are supported, and a script file for automated z-stack depth-of-field enhancement is written along with the images. The graphical user interface and real-time imaging also make it easy to manually inspect and capture images of individual samples.

scholarly journals The SoilExp software: An open-source Graphical User Interface (GUI) for post-processing spatial and temporal soil surveys

2020 ◽  
Vol 142 ◽  
pp. 104553
Author(s):  
G. Boudoire ◽  
M. Liuzzo ◽  
S. Cappuzzo ◽  
G. Giuffrida ◽  
P. Cosenza ◽  
...  
Keyword(s):  
User Interface ◽  
Open Source ◽  
Graphical User Interface ◽  
Post Processing ◽  
Soil Surveys

X-Light: an open-source software written in Python to determine the residual stress by X-ray diffraction

2021 ◽  
Vol 54 (4) ◽  
Author(s):  
Tu-Quoc-Sang Pham ◽  
Guillaume Geandier ◽  
Nicolas Ratel-Ramond ◽  
Charles Mareau ◽  
Benoit Malard
Keyword(s):  
Residual Stress ◽  
User Interface ◽  
Synchrotron Radiation ◽  
Stress Analysis ◽  
Open Source ◽  
Graphical User Interface ◽  
Open Source Software ◽  
Diffraction Data ◽  
X Ray Diffraction ◽  
X Ray

X-Light is an open-source software that is written in Python with a graphical user interface. X-Light was developed to determine residual stress by X-ray diffraction. This software can process the 0D, 1D and 2D diffraction data obtained with laboratory diffractometers or synchrotron radiation. X-Light provides several options for stress analysis and five functions to fit a peak: Gauss, Lorentz, Pearson VII, pseudo-Voigt and Voigt. The residual stress is determined by the conventional sin2ψ method and the fundamental method.

Lessons Learned from Design and Development of Military Scenario Definition Language Scenario Editing Toolset

2013 ◽  
Vol 748 ◽  
pp. 1041-1045 ◽  
Author(s):  
Xin Ye Zhao ◽  
Ying Cai ◽  
Shan Liang Yang ◽  
Ke Di Huang
Keyword(s):  
User Interface ◽  
Modeling And Simulation ◽  
Open Source ◽  
Graphical User Interface ◽  
Lessons Learned ◽  
Input Output ◽  
End User ◽  
Last Mile ◽  
The Military ◽  
Simulation Systems

The Military Scenario Definition Language (MSDL) is an approved SISO standard for describing components of military scenarios that can be shared across a variety of modeling and simulation systems. However, the “last mile problem” for MSDL development is to have a user interface that represents information flowing to/from C2 and simulation systems. We have developed an open-source Toolset for this purpose: MSDL Scenario Editing Toolset (MSDLSET), providing an easy-to-use graphical user interface to MSDL developers that can serve as a surrogate input/output GUI or alternately to generating MSDL file. MSDLSET is developed using other open-source Tools: Xcentric's JaxFront and BBN's OpenMap. MSDLSET provides easy and efficient means for the end user to edit validate and add MSDL components to the MSDL file. Numerous initiatives are in progress to employ the new Toolset and to realize the benefits of exchanging scenarios files across diverse systems.

scholarly journals Design of Microplate-Compatible Illumination Panels for a Semiautomated Benchtop Pipetting System

2019 ◽  
Vol 24 (4) ◽  
pp. 399-407 ◽  
Author(s):  
Pierre Baillargeon ◽  
Kervin Coss-Flores ◽  
Fakhar Singhera ◽  
Justin Shumate ◽  
Hannah Williams ◽  
...  
Keyword(s):  
User Interface ◽  
Open Source ◽  
Real Time ◽  
Graphical User Interface ◽  
Laboratory Automation ◽  
Liquid Handling ◽  
Essential Tool ◽  
Implementation Techniques ◽  
Software And Hardware ◽  
Transfer Volumes

Microplates are an essential tool used in laboratories for storing research materials and performing assays. Many types of laboratory automation exist that greatly reduce the effort needed to utilize microplates; however, there are cases where the use of such automation is not feasible or practical. In these instances, researchers must work in an environment where liquid handling operations are performed manually with handheld pipetting devices. This type of work is tedious and error-prone as it relies on researchers to manually track a significant amount of metadata, including transfer volumes, plate barcodes, well contents, and well locations. To address this challenge, we have developed an open-source, semiautomated benchtop system that facilitates manual pipetting using visual indicators. This device streamlines the process of identifying the location of wells so that the researcher can perform manual transfers in a more efficient, reliable, and accurate manner. This system utilizes a graphical user interface that allows the user to load worklists and then issues commands to illuminate wells of interest, providing a visual indicator for users to follow in real time. The software and hardware tools utilized for development, along with the implementation techniques used to produce this system, are described within.

Proteomic Cinderella: Customized analysis of bulky MS/MS data in one night

2018 ◽  
Vol 16 (01) ◽  
pp. 1740011 ◽  
Author(s):  
Olga Kiseleva ◽  
Ekaterina Poverennaya ◽  
Alexander Shargunov ◽  
Andrey Lisitsa
Keyword(s):  
User Interface ◽  
Open Source ◽  
High Throughput ◽  
Graphical User Interface ◽  
Modern Science ◽  
Human Proteome ◽  
Tandem Ms ◽  
Report Generation ◽  
Manual Search ◽  
Human Proteins

Proteomic challenges, stirred up by the advent of high-throughput technologies, produce large amount of MS data. Nowadays, the routine manual search does not satisfy the “speed” of modern science any longer. In our work, the necessity of single-thread analysis of bulky data emerged during interpretation of HepG2 proteome profiling results for proteoforms searching. We compared the contribution of each of the eight search engines (X!Tandem, MS-GF[Formula: see text], MS Amanda, MyriMatch, Comet, Tide, Andromeda, and OMSSA) integrated in an open-source graphical user interface SearchGUI ( http://searchgui.googlecode.com ) into total result of proteoforms identification and optimized set of engines working simultaneously. We also compared the results of our search combination with Mascot results using protein kit UPS2, containing 48 human proteins. We selected combination of X!Tandem, MS-GF[Formula: see text] and OMMSA as the most time-efficient and productive combination of search. We added homemade java-script to automatize pipeline from file picking to report generation. These settings resulted in rise of the efficiency of our customized pipeline unobtainable by manual scouting: the analysis of 192 files searched against human proteome (42153 entries) downloaded from UniProt took 11[Formula: see text]h.

scholarly journals The GridCAT: A toolbox for automated analysis of human grid cell codes in fMRI

2017 ◽  
Author(s):  
Matthias Stangl ◽  
Jonathan Shine ◽  
Thomas Wolbers
Keyword(s):  
User Interface ◽  
Open Source ◽  
Graphical User Interface ◽  
Cognitive Processes ◽  
Source Code ◽  
Research Area ◽  
List Type ◽  
Grid Cells ◽  
Code Analysis ◽  
Open Source Code

AbstractHuman fMRI studies examining the putative firing of grid cells (i.e., the grid code) suggest that this cellular mechanism supports not only spatial navigation, but also more abstract cognitive processes. This research area, however, remains relatively unexplored, perhaps us to the complexities of data analysis. To overcome this, we have developed the Matlab-based Grid Code Analysis Toolbox (GridCAT), providing a graphical user interface, and open-source code, for the analysis of fMRI data. The GridCAT performs all analyses, from estimation and fitting of the grid code in the general linear model, to the generation of grid code metrics and plots. Moreover, it is flexible in allowing the specification of bespoke analysis pipelines; example data are provided to demonstrate the GridCAT’s main functionality. We believe the GridCAT is essential to opening this research area to the imaging community, and helping to elucidate the role of human grid codes in higher-order cognitive processes.HighlightsThe putative firing of grid cells (i.e., the grid code) can be examined using fMRINecessary steps for grid code analysis are reviewedThe Matlab-based grid code analysis toolbox (GridCAT) is introducedAutomated grid code analysis can be conducted either via a graphical user interface or open-source codeA detailed manual and an example dataset are provided

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