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Yifan Wu, Joseph M. Hellerstein, Arvind Satyanarayan
2020 Proceedings of the 33rd Annual ACM Symposium on User Interface Software and Technology  
To bridge this divide, we present B2, a set of techniques grounded in treating data queries as a shared representation between the code and interactive visualizations.  ...  Data scientists have embraced computational notebooks to author analysis code and accompanying visualizations within a single document.  ...  This work was supported by NSF No. 1564351, 1900991 and 1942659, and DOE No. DE-SC0016934.  ... 
doi:10.1145/3379337.3415851 dblp:conf/uist/WuHS20 fatcat:bflx52diczcfrpl52ti7zasjc4

Lodestar: Supporting Independent Learning and Rapid Experimentation Through Data-Driven Analysis Recommendations [article]

Deepthi Raghunandan, Zhe Cui, Kartik Krishnan, Segen Tirfe, Shenzhi Shi, Tejaswi Darshan Shrestha, Leilani Battle, Niklas Elmqvist
2022 arXiv   pre-print
In this paper, we propose Lodestar, an interactive computational notebook that allows users to quickly explore and construct new data science workflows by selecting from a list of automated analysis recommendations  ...  Keeping abreast of current trends, technologies, and best practices in visualization and data analysis is becoming increasingly difficult, especially for fledgling data scientists.  ...  End-user and live programming paradigms have proven useful in creating intuitive interactions with visualizations found in computational notebooks.  ... 
arXiv:2204.07876v1 fatcat:tzva7qrmojccbhxzdxeaf4k32u

BioExcel-2 Deliverable 2.3 – First release of demonstration workflows

Adam Hospital, Genis Bayarri, Stian Soiland-Reyes, Jose Lluis Gelpi, Pau Andrio, Daniele Lezzi, Sarah Butcher, Ania Niewielska, Yvonne Westermaier, Rosa Maria Badia, Rodrigo Vargas, Alexandre Bonvin
2020 Zenodo  
The section is divided in three subsections, according to different workflow categories: Jupyter Notebook tutorials, library versatility tutorials, and pre-exascale demonstration workflows.  ...  The demonstration workflows designed and implemented in the first BioExcel-2 period are presented in the first section.  ...  Briefly, Jupyter Notebooks are an extension of the iPython (interactive Python) initiative, a command shell for interactive computing in multiple programming languages (initially developed for Python).  ... 
doi:10.5281/zenodo.4540432 fatcat:srr5ywi5x5hbvecqlfxqngeapi

Accelerating with FlyBrainLab the discovery of the functional logic of the Drosophila brain in the connectomic era

Aurel A Lazar, Tingkai Liu, Mehmet Kerem Turkcan, Yiyin Zhou
2021 eLife  
integrates 3D exploration and visualization of diverse datasets with interactive exploration of the functional logic of modeled executable brain circuits.  ...  Seeking to transcend the limitations of the connectome/synaptome, FlyBrainLab also provides libraries for molecular transduction arising in sensory coding in vision/olfaction.  ...  Interaction between code running in notebooks and widgets is fully supported.  ... 
doi:10.7554/elife.62362 fatcat:5ybopmod7vcxzd55adk6jgeluy

pyjeo: A Python Package for the Analysis of Geospatial Data

Pieter Kempeneers, Ondrej Pesek, Davide De Marchi, Pierre Soille
2019 ISPRS International Journal of Geo-Information  
The second shows how pyjeo can be imported within an interactive platform for image analysis and visualization.  ...  Using an innovative mechanism that interprets Python code within a C++ library on-the-fly, users can benefit from all functions in the pyjeo package.  ...  D.D.M. enabled the interactive execution of pyjeo and other Python packages within the JEO-lab environment.  ... 
doi:10.3390/ijgi8100461 fatcat:fticmcparrcpzmdi34okrmnbhe

FlyBrainLab: Accelerating the Discovery of the Functional Logic of the Fruit Fly Brain in the Connectomic/Synaptomic Era [article]

Aurel A Lazar, Tingkai Liu, Mehmet Kerem Turkcan, Yiyin Zhou
2020 bioRxiv   pre-print
To elevate its executable circuit construction capability beyond the connectome, FlyBrainLab provides additional libraries for molecular transduction arising in sensory coding in vision and olfaction.  ...  The FlyBrainLab User Interface supports a highly intuitive and automated workflow that streamlines the 3D exploration and visualization of fly brain circuits, and the interactive exploration of the functional  ...  interactive for CX circuits in wild-type fruit flies, 807 -interactively visualize neuron innervation patterns and circuit connectivity, 808 -are interoperable with 3D visualizations of the morphology  ... 
doi:10.1101/2020.06.23.168161 fatcat:v7nnyxbkfraypcttavape4xrsi

GeCoAgent: A Conversational Agent for Empowering Genomic Data Extraction and Analysis

Pietro Crovari, Sara Pidò, Pietro Pinoli, Anna Bernasconi, Arif Canakoglu, Franca Garzotto, Stefano Ceri
2022 ACM Transactions on Computing for Healthcare  
GeCoAgent uses a dialogic interface, animated by a chatbot, for supporting the end-users' interaction with computational tools accompanied by multi-modal support.  ...  Typical interactions require applying comparative data analysis to huge repositories of genomic information for building new knowledge, taking advantage of the latest findings in applied genomics for healthcare  ...  ACKNOWLEDGEMENTS This work was supported by the ERC Advanced Grant 693174 "Data-Driven Genomic Computing (GeCo)".  ... 
doi:10.1145/3464383 fatcat:z55wpyjvhjdytkr6g53uflswyi

VisExpress: Visual exploration of differential gene expression data

Svenja Simon, Sebastian Mittelstädt, Bum Chul Kwon, Andreas Stoffel, Richard Landstorfer, Klaus Neuhaus, Anna Mühlig, Siegfried Scherer, Daniel A Keim
2016 Information Visualization  
Second, we investigate the design space and present an interactive visualization system, called VisExpress.  ...  et al. 3 to bridge the gap between domain and visualization experts by fostering a richer communication and by mediating between domain and VIS experts, for instance, by abstracting domain problems to  ...  For each clip, the experimenter coded the participants' analytic and visualization activities.  ... 
doi:10.1177/1473871615612883 fatcat:52g34d4c4vdcxixfgesqzjas6i

Compute service requirements and state of the art approaches (D5.1) [article]

Christian Pagé, Sandro Fiore, Stephan Kindermann, Janette Bessembinder, Maarten Plieger, Carsten Ehbrecht, Guillaume Levavasseur, Paola Nassisi, Elia Donatello, Ag Stephens
2020 Zenodo  
In order to design and develop a Compute Service to support better data access to the European ESGF Research Infrastructure, it is mandatory to collect user requirements, gaps and challenges on computing  ...  This provides needed information to design and plan the future ENES Compute Service that will be developed within the IS-ENES3 project.  ...  Some old Java code from the previous version could be reused in that framework. All components will be deployed using docker-compose, and all source code and documentation will be stored in Gitlab.  ... 
doi:10.5281/zenodo.3724333 fatcat:7afsy7fmznbjzdpwoeofv7lhde

Jigsaw: Large Language Models meet Program Synthesis [article]

Naman Jain, Skanda Vaidyanath, Arun Iyer, Nagarajan Natarajan, Suresh Parthasarathy, Sriram Rajamani, Rahul Sharma
2021 arXiv   pre-print
In this paper, we present an approach to augment these large language models with post-processing steps based on program analysis and synthesis techniques, that understand the syntax and semantics of programs  ...  Our experience suggests that as these large language models evolve for synthesizing code from intent, jigsaw has an important role to play in improving the accuracy of the systems.  ...  Accelerating Code and Interactive Visualization in Computational Notebooks. In UIST ’20: search-based program synthesis using learned probabilistic models.  ... 
arXiv:2112.02969v1 fatcat:kjdac665kzhthldiqckru3in3u

EOSC-hub D10.6 Requirements and gap analysis report v2

Giacinto Donvito, Alessandro Costantini, Diego Scardaci
2020 Zenodo  
Thematic Services, Competence Centres and Business pilots) and external user communities (not directly involved in the project but engaged through other channels, e.g. the EOSC Portal) in the process to  ...  In the first report WP10 has defined and is currently operating procedures to elicit, assess and track the technical requirements of such communities and, consequently, provide adequate assistance to the  ...  : Open data access platforms (e.g. national OGC compliant data servers) • UC6 Support interactive data analysis with advanced geospatial data visualization and libraries of advanced method (including ML  ... 
doi:10.5281/zenodo.5033365 fatcat:qw42gixeejeuhl2oewuh3ov26q

Uncovering Statistical Links Between Gene Expression and Structural Connectivity Patterns in the Mouse Brain

Nestor Timonidis, Alberto Llera, Paul H. E. Tiesinga
2021 Neuroinformatics  
We performed separate analyses on sets of projections from the visual cortex, the caudoputamen and the midbrain reticular nucleus, and we determined those brain areas, injections and genes that were most  ...  The results were highly reproducible when including all available projections, as well as consistent with factorisations obtained using the Dictionary Learning and Sparse Coding technique.  ...  See Main Table 2 for links to the Matlab code and to the Notebook mentioned here.  ... 
doi:10.1007/s12021-021-09511-0 pmid:33704701 pmcid:PMC8566442 fatcat:tcdyud32mnfildr5fekdwlwlzu

dh2loop 1.0: an open-source Python library for automated processing and classification of geological logs

Ranee Joshi, Kavitha Madaiah, Mark Jessell, Mark Lindsay, Guillaume Pirot
2021 Geoscientific Model Development  
dh2loop formats legacy data bridging the gap between utilization and maximization of legacy drill hole data and drill hole analysis functionalities available in existing Python libraries (lasio, welly  ...  A huge amount of legacy drilling data is available in geological survey but cannot be used directly as they are compiled and recorded in an unstructured textual form and using different formats depending  ...  The research was carried out while the first author was in receipt of a Scholarship for International Research Fees (Australian Government Research Training Program Scholarship) and an Automated 3D Geology  ... 
doi:10.5194/gmd-14-6711-2021 fatcat:nqujxtgkkrgzxexpdlrrhyy3xe

i-LaTeX : Manipulating Transitional Representations between LaTeX Code and Generated Documents

Camille Gobert, Michel Beaudouin-Lafon
2022 CHI Conference on Human Factors in Computing Systems  
The user can interact with the transitional to modify the structure and the content of the table.  ...  The transitional and the code are synchronised, so that every change in either one of them instantly updates the other representation (e.g., inserting a new column in the grid adds cell separators in the  ...  This work was partially supported by European Research Council (ERC) grant n°695464 ONE: Unifed Principles of Interaction.  ... 
doi:10.1145/3491102.3517494 fatcat:azf77wtq5rb37bxfiq65kx34fm

What demographic attributes do our digital footprints reveal? A systematic review

Joanne Hinds, Adam N. Joinson, David Garcia
2018 PLoS ONE  
Recent research has demonstrated that the digital traces left by individuals as they browse and interact with others online may reveal who they are and what their interests may be.  ...  In the present paper we report a systematic review that synthesises current evidence on predicting demographic attributes from online digital traces.  ...  In Online Social Media Analysis and Visualization. 2014. p. 47-62. 102. Castillo E, Cervantes O, Vilariño D, Pinto D, Leó n S.  ... 
doi:10.1371/journal.pone.0207112 pmid:30485305 pmcid:PMC6261568 fatcat:jo2ycsiit5a23drbbpytifn36q
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