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PeerJ PrePrints, Volume 4
Volume 4, 2016
- Masamichi Sato:
Derivation of kernel of dynamic support vector machines: Stochastic and deterministic data process. e1624 - Nicole Balasco, Luciana Esposito, Luigi Vitagliano:
Interplay between peptide bond geometry and local conformation: molecular dynamics analyses. e1628 - Antonio d'Acierno, Angelo M. Facchiano, Anna Marabotti:
GALACTOSEMIA Web DB: A web accessible database of Galactosemia related proteins. e1645 - Carmelo Laudanna, Gianluca Santamaria, Simona Migliozzi, Duarte Mendes Oliveira, Donatella Malanga, Rosario Sacco, Antonia Rizzuto, Giuseppe Viglietto:
Genetic characterization of colorectal cancer using a next generation sequencing approach to identify a specific pattern of somatic alterations in tumors arising from different anatomic sites. e1658 - David Topps
, Michelle L. Cullen, Nishan Sharma, Rachel H. Ellaway:
Putting the ghost in the machine: exploring human-machine hybrid virtual patient systems for health professional education. e1659 - Abram Hindle:
Green software engineering: the curse of methodology. e1470 - Daniele Ferone, Angelo M. Facchiano, Anna Marabotti, Paola Festa:
A new GRASP metaheuristic for biclustering of gene expression data. e1679 - John Salvatier, Thomas V. Wiecki, Christopher Fonnesbeck:
Probabilistic programming in Python using PyMC3. e1686
- Ivar Farup
:
A computational framework for colour metrics and colour space transforms. e1700 - Joshua Charles Campbell
, Eddie A. Santos, Abram Hindle:
The unreasonable effectiveness of traditional information retrieval in crash report deduplication. e1705 - Marian Siwiak, Albert Bogdanowicz, Agnieszka Hajduk, Michal Krassowski, Pawel Jankowski, Mariia Savenko, Adam A. P. Pyzik, Pawel Szczesny
:
Extending MetAMOS - new methods and new integrations. e1706 - Lee Naish:
Similarity to a single set. e1713 - Rodrick Wallace:
Canonical instabilities of autonomous vehicle systems. e1714 - Stefan Wagner
, Asim Abdulkhaleq, Ivan Bogicevic, Jan-Peter Ostberg, Jasmin Ramadani:
How are functionally similar code clones syntactically different? An empirical study and a benchmark. e1516 - Andrew MacDonald
:
PhilDB: The time series database with built-in change logging. e1488 - Nicolas Durrande, James Hensman, Magnus Rattray, Neil D. Lawrence
:
Detecting periodicities with Gaussian processes. e1743 - Sebastiano Panichella, Annibale Panichella, Moritz Beller
, Andy Zaidman, Harald C. Gall
:
The impact of test case summaries on bug fixing performance: An empirical investigation. e1467 - Theodorich Kopetzky
:
Reading newspapers on the web with a refined history feature. e1756 - Jens Allmer
:
Exact pattern matching: Adapting the Boyer-Moore algorithm for DNA searches. e1758 - Tobias Kuhn
, Christine Chichester, Michael Krauthammer, Núria Queralt-Rosinach, Ruben Verborgh
, George Giannakopoulos, Axel-Cyrille Ngonga Ngomo
, Raffaele Viglianti, Michel Dumontier:
Decentralized provenance-aware publishing with nanopublications. e1760 - Eddie A. Santos, Abram Hindle:
Judging a commit by its cover; or can a commit message predict build failure? e1771 - Jordan Anaya:
OncoLnc: Linking TCGA survival data to mRNAs, miRNAs, and lncRNAs. e1780 - Giuseppe Scanniello, Simone Romano, Davide Fucci, Burak Turhan, Natalia Juristo:
Students' and professionals' perceptions of test-driven development: a focus group study. e1619
- Kyle T. Mandli
, Aron J. Ahmadia, Marsha J. Berger, Donna A. Calhoun, David L. George, Yiannis Hadjimichael
, David I. Ketcheson
, Grady I. Lemoine, Randall J. LeVeque:
The Clawpack 5.x software. e1829 - Simone Romano, Davide Fucci, Giuseppe Scanniello, Burak Turhan, Natalia Juristo:
Results from an ethnographically-informed study in the context of test-driven development. e1864 - Yang Liu, Meng Li:
BibeR: A Web-based tool for bibliometric analysis in scientific literature. e1879 - Indranil Sinharoy
, Prasanna Rangarajan, Marc P. Christensen:
Geometric model of image formation in Scheimpflug cameras. e1887 - Gerald Schermann, Jürgen Cito, Philipp Leitner, Uwe Zdun, Harald C. Gall
:
An empirical study on principles and practices of continuous delivery and deployment. e1889 - Andrew E. Webb, Thomas A. Walsh, Mary J. O'Connell:
VESPA: Very large-scale Evolutionary and Selective Pressure Analyses. e1895 - Xiaoqian Liu, Tingshao Zhu:
Deep learning for constructing microblog behavior representation to identify social media user's personality. e1906
- Ron Henkel, Fabienne Lambusch, Olaf Wolkenhauer, Kurt Sandkuhl, Christian Rosenke, Dagmar Waltemath:
Finding patterns in biochemical reaction networks. e1479 - Alex M. Clark, Nadia K. Litterman, Janice E. Kranz, Peter Gund, Kellan Gregory, Barry A. Bunin:
BioAssay templates for the semantic web. e1932 - Chakkrit Tantithamthavorn, Shane McIntosh, Ahmed E. Hassan, Ken-ichi Matsumoto:
Comments on "Researcher bias: The use of machine learning in software defect prediction". e1260 - Stephen Romansky, Sadegh Charmchi, Abram Hindle:
Boa: a link between worlds. e1947 - Atilla Özgür, Hamit Erdem:
A review of KDD99 dataset usage in intrusion detection and machine learning between 2010 and 2015. e1954 - Florian Wagner
:
The XL-mHG test for enrichment: Algorithms, bounds, and power. e1962 - Moritz Beller
, Georgios Gousios, Andy Zaidman:
Oops, my tests broke the build: An analysis of Travis CI builds with GitHub. e1984 - Sahar Mokhtari, Jiri Kadlec:
Design of an open source framework for oil spill decision support system. e1990 - Edmund Hart, Pauline Barmby
, David S. LeBauer, François Michonneau
, Sarah Mount
, Patrick Mulrooney, Timothée Poisot
, Kara H. Woo, Naupaka Zimmerman, Jeffrey W. Hollister
:
Ten simple rules for digital data storage. e1448 - Clayton A. Davis, Giovanni Luca Ciampaglia, Luca Maria Aiello, Keychul Chung, Michael D. Conover, Emilio Ferrara
, Alessandro Flammini, Geoffrey Charles Fox, Xiaoming Gao, Bruno Gonçalves, Przemyslaw A. Grabowicz, Kibeom Hong, Pik-Mai Hui, Scott McCaulay, Karissa McKelvey, Mark R. Meiss, Snehal Patil, Chathuri Peli Kankanamalage, Valentin Pentchev, Judy Qiu, Jacob Ratkiewicz, Alex Rudnick, Benjamin Serrette, Prashant Shiralkar, Onur Varol, Lilian Weng, Tak-Lon Wu, Andrew J. Younge, Filippo Menczer:
OSoMe: The IUNI observatory on social media. e2008
- Justin Bedo
, Benjamin Goudey, Jeremy Wazny, Ze-yu Zhou:
Information theoretic alignment free variant calling. e2015 - Varun Sapra, Abram Hindle:
Web servers energy efficiency under HTTP/2. e2027 - Jean-Nicola Blanchet, Sébastien Déry, Jacques-André Landry, Kate Osborne:
Automated annotation of corals in natural scene images using multiple texture representations. e2026 - Stefan Wagner
, Daniel Méndez Fernández, Michael Felderer, Marcos Kalinowski:
Requirements engineering practice and problems in agile projects: results from an international survey. e2038 - Alice C. Eldridge, Michael A. Casey, Paola Moscoso, Mika Peck:
A New Method for Ecoacoustics? Toward the Extraction and Evaluation of Ecologically-Meaningful Sound Objects using Sparse Coding Methods. e1407 - Rommel N. Carvalho, Kathryn B. Laskey, Paulo Cesar G. da Costa:
Uncertainty modeling process for semantic technology. e2045 - Javier Luis Cánovas Izquierdo
, Jordi Cabot
:
Collaboro: A collaborative (Meta) modeling tool. e2046 - Daniel J. Greenhoe:
Order and Metric Compatible Symbolic Sequence Processing. e2052 - Daniel J. Greenhoe:
Properties of distance spaces with power triangle inequalities. e2055 - Giovanni Bembo:
FLIP: an Internet protocol for flat labels. e1749 - Josep Cuadrado
, Jordi Vilaplana, Jordi Mateo, Francesc Solsona
, Sara Solsona, Josep Rius, Rui Alves, Miguel Camafort
:
HBPF: a Home Blood Pressure Framework with SLA guarantees to follow up hypertensive patients. e2073
- Naga Durga Prasad Avirneni, Prem Kumar Ramesh, Arun K. Somani:
Managing contamination delay to improve Timing Speculation architectures. e1412 - Julian Zubek, Dariusz Plewczynski
:
Complexity curve: a graphical measure of data complexity and classifier performance. e2095 - Yann H. Chemin
, Ian A. Crawford, Peter Grindrod, Louise Alexander:
Assessment of spectral properties of Apollo 12 landing site. e2124 - Massimiliano Cannata, Jakob Neumann, Mirko Cardoso, Rudy Rossetto, Laura Foglia:
Observation analysis tool for the FREEWAT GIS environment for water resources management. e2127 - Aaron Meurer, Christopher P. Smith
, Mateusz Paprocki, Ondrej Certík, Matthew Rocklin, Amit Kumar, Sergiu Ivanov, Jason Keith Moore
, Sartaj Singh, Thilina Rathnayake, Sean Vig
, Brian E. Granger, Richard P. Muller, Francesco Bonazzi, Harsh Gupta, Shivam Vats, Fredrik Johansson, Fabian Pedregosa, Matthew J. Curry, Ashutosh Saboo, Isuru Fernando, Sumith Kulal, Robert Cimrman, Anthony M. Scopatz:
SymPy: Symbolic computing in Python. e2083 - Benjamin Ultan Cowley
, Jussi Korpela, Jari Torniainen:
Computational testing for automated preprocessing: a matlab toolbox for better electroencephalography data processing. e2140 - Neil Borle, Meysam Feghhi, Abram Hindle:
Analysis of Test Driven Development on sentiment and coding activities in GitHub repositories. e1920 - Eugenio Del Prete
, Serena Dotolo, Anna Marabotti
, Angelo M. Facchiano:
Feature selection on a dataset of protein families: from exploratory data analysis to statistical variable importance. e2157 - Amol S. Patwardhan
:
Structured unit testable templated code for efficient code review process. e2163 - Ahmad B. A. Hassanat, Esra'a Alkafaween, Nedal A. Al-Nawaiseh, Mohammad Ali Abbadi, Mouhammd Alkasassbeh, Mahmoud Bashir Alhasanat:
Enhancing genetic algorithms using multi mutations. e2187 - Maximilian Saalfeld, Christopher Weber, Silvia M. Lobmaier, Joy Weyrich, Holger J. Grundmann, Christian Harböck, Martin Däumer:
Automation in clinical data collection in obstetrics - Enabling pooled IPD studies for fetal heart rate and activity monitoring. e2098 - Gianluca Massei
, Lucia Rocchi, Luisa Paolotti, Antonio Boggia:
Monitoring natural and rural ecosystems using the NDVI anomaly: an application to the Umbria Region. e2191
- Gonzalo S. Nido, Ludovica Bachschmid-Romano, Ugo Bastolla
, Alberto Pascual-García
:
Learning protein folding and evolution with a snake puzzle. e2201 - Lukasz Slugocki, Robert Czerniawski:
Impact of the catchment land use on some factors of lakes trophic status: a GIS approach. e2203 - Lian Tze Lim
, Ruoh Tau Chiew, Enya Kong Tang, Rusli Abdul Ghani, Naimah Yusof:
Digitising a machine-tractable version of Kamus Dewan with TEI-P5. e2205 - Massimiliano Cannata, Yann Chemin
, Milan Petar Antonovic, Lahiru Wijesinghe, Vivien Deparday:
Open technologies for monitoring systems aimed at disaster risk reduction. e2132 - Ugo Chouinard, Natalie Baddour
:
Matlab code for the Discrete Hankel Transform. e2216 - Osama Ashfaq:
Object recognition using hybrid boosting method. e2220 - Amy V. Beeston
, Larisa Blazic, Neil P. Chue Hong, Richard Domander, Ross Mounce
, Robin T. Wilson:
Ten simple rules for writing a comparative software review. e2221 - Angela Olasz, Binh Nguyen Thai:
Geospatial Big Data processing in an open source distributed computing environment. e2226 - Simone Sterlacchini
, Marco Zazzeri, Giacomo Cappellini
, Michele Pastormerlo, Alessandro Bonazzi:
An Open source GIS-based tool for economic loss estimation due to flood events. e2228 - Alfonso Crisci
, Luca Congedo, Marco Morabito, Michele Munafò:
Summer Heat Risk Index: how to integrate recent climatic changes and soil consumption component. e2234 - Marianna Ferrigno, Marco Martello, Gianfranco Giannerini, Veronica Manganiello, Daniela Quarato, Chiara Antinoro, Simona Capone, Antonio Pepe, Raffaella Zucaro:
Mapping and analysis of pressures on water resources from agriculture to target water and agriculture policies. e2239 - Jérémy Bernard, Marjorie Musy
, Isabelle Calmet, Erwan Bocher
, Pascal Keravec:
Integrated method for cities air temperature estimation. e2240 - Valentina Grasso
, Imad Zaza, Federica Zabini, Gianni Pantaleo, Paolo Nesi
, Alfonso Crisci
:
Weather events identification in social media streams: tools to detect their evidence in Twitter. e2241 - Carlo Cipolloni, Matija Krivic, Matevz Novak, Marco Pantaloni
:
The open geohazard widget to perform environmental risk analysis. e2246 - Neeraj Bokde
, Kishore Kulat:
Demonstration of an open source platform for reproducible comparison of predictive models. e2251 - Osama Ashfaq:
Beliefs propagation in log domain: a neural inspired algorithm for machine learning. e2256 - Neeraj Bokde
, Aditya Gupta, Kishore Kulat:
Introduction of seasonality concept in PSF algorithm to improve univariate time series predictions. e2184 - Antonio Prestes García
, Alfonso Rodríguez-Patón:
EvoPER - An R package for applying evolutionary computation methods in the parameter estimation of individual-based models implemented in Repast. e2279 - Manuela Corongiu, Riccardo Mari, Raffaella Ferrari, Lorenzo Bottai, Valentina Grasso
, Federica Zabini, Luca Fibbi
, Daniele Grifoni, Claudio Tei, Franceso Pasi, Bernardo Gozzini, Simone Giannecchini:
The opendata geoportal of the Lamma Consortium. e2247 - Marco Ortu, Giuseppe Destefanis, Steve Counsell, Stephen Swift, Michele Marchesi, Roberto Tonelli:
How diverse is your team? Investigating gender and nationality diversity in GitHub teams. e2285 - Francesco Ponziani, Marco Stelluti, Nicola Berni:
Development of a WEB-GIS real-time dynamic landslide risk scenarios procedure - Umbria Region civil protection early warning system, a case study. e2288 - Mahmud Hasan, Mehmet A. Orgun, Rolf Schwitter:
TwitterNews: Real time event detection from the Twitter data stream. e2297 - Josh Terrell, Andrew Kofink, Justin Middleton, Clarissa Rainear, Emerson R. Murphy-Hill, Chris Parnin:
Gender bias in open source: Pull request acceptance of women versus men. e1733 - Lea A. I. Vaas, Gesa Witt
, Björn Windshügel, Andrea Bosin, Giovanni Serra, Adrian Bruengger, Mathias Winterhalter, Philip Gribbon, Cindy J. Levy-Petelinkar, Manfred Kohler:
Electronic laboratory notebooks in a public-private-partnership. e2325
- Andrea Motti, Norman Natali:
Geothematic open data in Umbria region. e2096 - Markus J. Ankenbrand
, Sonja Hohlfeld, Thomas Hackl, Frank Förster
:
AliTV-interactive visualization of whole genome comparisons. e2348 - Massimiliano Cannata
, Jakob Neumann, Mirko Cardoso, Rudy Rossetto
, Laura Foglia, Iacopo Borsi
:
Integration of the MODFLOW Lak7 package in the FREEWAT GIS modelling environment. e2207 - Kam D. Dahlquist
, John David N. Dionisio, Ben G. Fitzpatrick, Nicole A. Anguiano, Anindita Varshneya, Britain J. Southwick, Mihir Samdarshi:
GRNsight: a web application and service for visualizing models of small- to medium-scale gene regulatory networks. e2068 - Abram Hindle
:
Stopping duplicate bug reports before they start with Continuous Querying for bug reports. e2373 - Saeed Mohajeryami
, Valentina Cecchi:
Correlation between predictability index and the error performance of customer baseline load (CBL) calculation. e2374 - Arfon M. Smith
, Daniel S. Katz
, Kyle E. Niemeyer
:
Software Citation Principles. e2169 - Azim Dehghani Amirabad, Marcel H. Schulz:
Multitask regression for condition-specific prioritization of miRNA targets in transcripts. e2377 - Daniel Bilar
:
The man-machine integration era. e2402
- Don L. Jewett:
Transforming the Web into an open-access knowledge-repository with better knowledge-creation and faster publication, by means of software for MetaLinks and for AEC-Forums that enhance post-graduate education. e1568 - Erwan Bocher, Olivier Ertz:
Redesign of OGC Symbology Encoding standard for sharing cartography. e2415 - Moritz Beller
, Alberto Bacchelli:
Double blind reviews in software engineering venues: Practicability, promises and perils. e1757 - Shaiful Alam Chowdhury, Stephanie Gil, Stephen Romansky, Abram Hindle
:
GreenScaler: Automatically training software energy models with big data. e2419 - Sara Antognelli, Marco Vizzari:
LISAM: an open source GIS-based model for liveability spatial assessment. e2133 - Andrea K. McIntosh, Abram Hindle
:
What should mobile app developers do about machine learning and energy? e2431 - Brook G. Milligan:
Probabilistic graph models for landscape genetics. e2225 - Ilaria Ferrando, Pierluigi De Rosa, Bianca Federici, Domenico Sguerso:
Spatial interpolation techniques for a near real-time mapping of Pressure and Temperature data. e2223 - Clara Tattoni, Erica Soardi, Paolo Zatelli, Marco Ciolli:
Food availability and flight routes for migratory birds: a GIS approach. e2168 - Daniele Oxoli
, Mayra Zurbarán, Stanly Shaji, Arun K. Muthusamy:
Hotspot analysis: a first prototype Python plugin enabling exploratory spatial data analysis into QGIS. e2204 - Nic Herndon, Emily S. Grau, Iman Batra, Steven A. Demurjian, Hans A. Vasquez-Gross, Margaret E. Staton, Jill L. Wegrzyn:
CartograTree: Enabling landscape genomics for forest trees. e2345 - Martin Mergili
, Matthias Benedikt, Julia Krenn, Jan-Thomas Fischer, Shiva P. Pudasaini:
r.avaflow & r.randomwalk: two complementary and comprehensive open source GIS simulation tools for the propagation of rapid geophysical mass flows. e2224 - Daniel J. Greenhoe:
An extension to the spherical metric using polar linear interpolation. e2467 - Annalisa Minelli, Cyril Tissot, Mathias Rouan, Matthieu Le Tixerant:
Simulation of marine activities by coupling Geographical Information System and Agent Based Model: improvements and technical achievements. e2231 - Annalisa Minelli, Marj Tonini
:
An agent-based model to assess the forest fires dynamic in the southern Swiss alpine region. e2152 - Bianca Federici, Rossella Bovolenta, Dario Balestrero, Roberto V. Passalacqua:
Oscillation of water table due to rainfall: an experience of modeling in GIS. e2244 - Anna Bruna Petrangeli, Elisabetta Preziosi, Francesco Campopiano, Angelo Corazza, Andrea Duro:
CREGIS-Q: a GIS tool to support decision making in case of aquifer contamination emergency. e2235 - Jean-Michel Follin, Maïté Fahrasmane, Elisabeth Simonetto:
An open-source based toolchain for the georeferencing of old cadastral maps. e2222 - Lorenzo Amato, Dimitri Dello Buono, Francesco Izzi, Giuseppe La Scaleia, Donato Maio:
HELP - An Early warning dashboard System, built for the prevention, mitigation and assessment of disasters, with a flexible approach using open data and open source technologies. e2229 - Stefano Menegon, Alessandro Sarretta
, Andrea Barbanti, Elena Gissi, Chiara Venier:
Open source tools to support Integrated Coastal Management and Maritime Spatial Planning. e2245 - Jens Ingensand, Sarah Composto, Olivier Ertz, Daniel Rappo, Marion Nappez, Timothée Produit, Mathias Oberson, Ivo Widmer, Stéphane Joost
:
Keys to successful scientific VGI projects. e2230 - Luca Ciabatta, Christian Massari, Luca Brocca
, Christoph Reimer, Sebastian Hann, Christoph Paulik
, Wouter Dorigo, Wolfgang Wagner:
Using Python® language for the validation of the CCI soil moisture products via SM2RAIN. e2131 - Roberto Santos
, Dai Huynh, Suchith Anand, Rumiana Ray, Sean Mayes, Didier G. Leibovici:
A geoprocessing modelling interoperable framework for AgriGIS using open data and open standards. e2136 - Roberto Santos
, Adam Algar, Richard Field
, Sean Mayes:
Integrating GIScience and Crop Science datasets: a study involving genetic, geographic and environmental data. e2248 - Tiziana De Filippis, Leandro Rocchi, Patrizio Vignaroli, Maurizio Bacci, Vieri Tarchiani, Elena Rapisardi:
Open source geoprocessing tools and meteorological satellite data for crop risk zones monitoring in Sub-Saharan Africa. e2265