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PeerJ PrePrints, Volume 3
Volume 3, 2015
- Benjamin Adams:
Geographic Feature Type Topic Model (GFTTM): grounding topics in the landscape. e816 - Matheus Sant Ana Lima:
An genetic algorithm approach for profiling computational performance measures. e819 - Abhishek Bhatia, Chetan Sharma, Rinkaj Goyal:
Development of an agent based model illustrating the usage of deferred acceptance algorithm in the admission process. e825 - Joan Starr, Eleni Castro, Mercè Crosas, Michel Dumontier, Robert R. Downs, Ruth E. Duerr
, Laurel L. Haak, Melissa A. Haendel
, Iván Herman, Simon Hodson
, Joe Hourclé, John Ernest Kratz, Jennifer Lin
, Lars Holm Nielsen, Amy Nurnberger
, Stefan Pröll, Andreas Rauber, Simone Sacchi
, Arthur P. Smith, Michael Taylor, Tim Clark:
Achieving human and machine accessibility of cited data in scholarly publications. e697 - Meiyappan Nagappan, Romain Robbes, Yasutaka Kamei, Éric Tanter, Shane McIntosh, Audris Mockus, Ahmed E. Hassan:
An empirical study of goto in C code. e826 - Daniel J. Greenhoe:
Order and metric geometry compatible stochastic processing. e844 - Crysttian Arantes Paixão, Flávio Codeço Coelho
:
Matrix compression methods. e849
- Nishant Gupta, Shubhnandan S. Jamwal:
Server side algorithms for WHLK (Watermark, Hardware Parameters and License Key) framework. e868 - Eduard Paul Enoiu
:
Programming languages popularity and implications to testing programmable logic controllers. e879 - Seyed Mohammad Ali Sanipour, Iman Ahadi-Akhlaghi:
A new method for eliminating blur caused by the rotational motion of the images. e872 - Hemant Purohit, Tanvi Banerjee, Andrew J. Hampton, Valerie L. Shalin, Nayanesh Bhandutia, Amit P. Sheth:
Gender-based violence in 140 characters or fewer: a #BigData case study of Twitter. e883 - Qingpeng Zhang, Sherine Awad, C. Titus Brown:
Crossing the streams: a framework for streaming analysis of short DNA sequencing reads. e890 - Greg R. Ziegler, Ryan H. Hartsock, Ivan Baxter
:
Zbrowse: an interactive GWAS results browser. e902 - Santonu Goswami, Kuldeep Matharasi:
Development of a web-based vegetation spectral library (VSL) for remote sensing research and applications. e915
- Ziyun Xu:
The ever-changing face of Chinese Interpreting Studies: a social network analysis. e945 - Mehmet Adil Yalçin, Elizabeth E. Gardner, Lindsey B. Anderson, Rowie Kirby-Straker, Andrew D. Wolvin, Benjamin B. Bederson
:
Analysis of consistency in large multi-section courses using exploration of linked visual data summaries. e964 - Matthew D. Shirley, Zhaorong Ma, Brent S. Pedersen, Sarah J. Wheelan:
Efficient "pythonic" access to FASTA files using pyfaidx. e970 - Jürgen Cito, Philipp Leitner, Harald C. Gall
, Aryan Dadashi, Anne Keller, Andreas Roth:
Runtime metric meets developer - Building better cloud applications using feedback. e985 - Abram Hindle:
Tech report: Orchestrating your cloud orchestra: Model driven development of cloud deployment and orchestration for distributed computer music instruments. e991 - Alex Wilson, Abram Hindle:
The Shake Stick. e995
- Farzana Rahman, Rohit Farmer, Sayoni Das, Fatima Vayani, Mehedi Hassan
:
Highlights from the 1st Student Symposium on Computational Biology and Life Sciences, organised by ISCB Regional Student Group, UK. e999 - Alvaro R. Ortiz Troncoso
:
Data management aspects of public engagement with biodiversity documentation. e992 - Hudson Borges, Marco Túlio Valente:
Mining usage patterns for the Android API. e1075 - Cati Brown-Johnson
, Donald Rubin:
A corpus-based analysis of potential linguistic indicators of corporate deception in tobacco industry documents. e1079 - Adam S. Hughes, Mark E. Reeves, Zhaowen Liu:
PAME: Plasmonic Assay Modeling Environment. e1085 - Thomas Sloan, Julio C. Hernandez-Castro:
Forensic analysis of video steganography tools. e1019 - Ammar Benabdelkader, Antoine H. C. van Kampen, Sílvia D. Olabarriaga:
PROV-man: A PROV-compliant toolkit for provenance management. e1102 - Joshua Charles Campbell
, Abram Hindle, José N. Amaral:
Error location in Python: where the mutants hide. e1132
- Evgeny V. Mavrodiev:
1001 - A tool for binary representations of unordered multistate characters (with examples from genomic data). e1153 - Sujata Jindal, Ritu Sindhu:
Measuring the value of the social network: analysis, quantitative approach, and application. e1154 - Sakshi Aggarwal, Ritu Sindhu:
An approach to improve the efficiency of apriori algorithm. e1159 - Carol V. Alexandru, Annibale Panichella, Sebastiano Panichella, Alberto Bacchelli, Harald C. Gall
:
Smart learning: A search-based approach to rank change and defect prone classes. e1160 - Mario Ziller:
A multi prototype classification algorithm and its application to multi class diagnostics. e1180 - Zhihua Li:
A redundancy-removing feature selection algorithm for nominal data. e1184 - Gregory Burlet, Abram Hindle:
Isolated instrument transcription using a deep belief network. e1193 - Ziyun Xu, Leonid B. Pekelis:
A survey of Chinese Interpreting Studies: Who influences who ... and why? e941 - Lee Naish:
Sharing analysis in the Pawns compiler. e907 - Joshua Charles Campbell
, Abram Hindle:
The charming code that error messages are talking about. e1138 - Vincenzo Palleschi, Luca Pagani, Stefano Pagnotta, Giuseppe Amato, Sergio Tofanelli:
Application of Graph Theory to the elaboration of personal genomic data for genealogical research. e1201
- Daniela Zahn, Christoph Scheepers:
Overt prosody and plausibility as cues to relative-clause attachment in English spoken sentences. e1210 - Xiaolong Wang, Chao Yang:
CAUSA 2.0: accurate and consistent evolutionary analysis of proteins using codon and amino acid unified sequence alignments. e1214 - Rubén Saborido, Venera Arnaoudova, Giovanni Beltrame
, Foutse Khomh, Giuliano Antoniol:
On the impact of sampling frequency on software energy measurements. e1219 - Abraham G. Ayana:
Improving Brill's tagger lexical and transformation rule for Afaan Oromo language. e1225 - Pavlo Bazilinskyy, Joost C. F. de Winter:
Auditory interfaces in automated driving: an international survey. e1069 - Paul Fremantle
, Philip J. Scott
:
A security survey of middleware for the Internet of Things. e1241 - Horacio Pérez Sánchez, Vahid Rezaei Tabar, Vitaliy Mezhuyev
, Duhu Man, Jorge Peña-García, Helena den-Haan, Sandra Gesing:
Developing science gateways for drug discovery in a grid environment. e1245 - Niko Schwarz, Aaron Karper, Oscar Nierstrasz
:
Efficiently extracting full parse trees using regular expressions with capture groups. e1248 - Gerhard Marquart, Joost C. F. de Winter:
Workload assessment for mental arithmetic tasks using the task-evoked pupillary response. e1105 - Chakkrit Tantithamthavorn, Shane McIntosh, Ahmed E. Hassan, Ken-ichi Matsumoto:
Comments on "Researcher bias: The use of machine learning in software defect prediction". e1260 - Candy Pang, Abram Hindle, Bram Adams, Ahmed E. Hassan:
What do programmers know about the energy consumption of software? e886
- Ziyun Xu:
Doctoral dissertations in Chinese Interpreting Studies: A scientometric survey using topic modeling. e1277 - Nuno Fachada
, Vitor V. Lopes
, Rui Costa Martins, Agostinho C. Rosa:
A template model for agent-based simulations. e1278 - Shaiful Alam Chowdhury, Varun Sapra, Abram Hindle:
Is HTTP/2 more energy efficient than HTTP/1.1 for mobile users? e1280 - Patrick Golden, Ryan Shaw
:
Nanopublication beyond the Sciences. e1284 - Shern Shiou Tan, Tomás Maul, Neil Mennie:
Luminophonics experiment: A user study on visual sensory substitution device. e1289 - Gerald Schermann, Jürgen Cito, Philipp Leitner:
All the services large and micro: Revisiting industrial practices in services computing. e1291 - Abe Kazemzadeh
, James Gibson, Panayiotis G. Georgiou, Sungbok Lee, Shrikanth S. Narayanan:
A Socratic epistemology for verbal emotional intelligence. e1292 - Stefanie König, Lars Romoth, Lizzy Gerischer, Mario Stanke:
Simultaneous gene finding in multiple genomes. e1296 - Markus Fleischauer, Sebastian Böcker
:
Collecting reliable clades using the Greedy Strict Consensus Merger. e1297 - Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau
:
Next generation cluster editing. e1301 - Heiko Giese, Jörg Ackermann, Ulrich Brandt, Ilka Wittig, Ina Koch
:
Cluster analysis and visualization techniques for large datasets in complexome profiling. e1303 - Stefan Schuster, Daniel Boley, Philip Möller, Christoph Kaleta:
A minimal model for explaining the higher ATP production in the Warburg effect. e1309 - Shuangshuang Nie, Jihong Gao:
Discrete time-cost tradeoff model for optimizing multi-mode construction project resource allocation. e1299 - Ivanilton Polato, Denilson Barbosa, Abram Hindle, Fabio Kon
:
Hybrid HDFS: decreasing energy consumption and speeding up Hadoop using SSDs. e1320 - Jan Mokrý, Miloslav Nic:
Designing Universal Chemical Markup (UCM) through the reusable methodology based on analyzing existing related formats. e1335 - Jan Mokrý, Miloslav Nic
:
Universal Chemical Markup (UCM) - A new format for common chemical data. e1336
- Nina Hesse, Christopher Schröder, Sven Rahmann:
An optimization approach to detect differentially methylated regions from Whole Genome Bisulfite Sequencing data. e1287 - Derek Doran, Andrew Fox:
Operationalizing Central Place Theory and Central Flow Theory with mobile phone data. e1342 - Axel Mosig, Jörg Rahnenführer, Martin Eisenacher, Sven Rahmann
:
Invited presentations, junior research groups and research highlights at GCB 2015. e1352 - Maleknaz Nayebi, Guenther Ruhe:
Trade-off Service Portfolio Planning - A Case Study on Mining the Android App Market. e1354 - Guilherme Avelino, Marco Túlio Valente, André C. Hora:
What is the Truck Factor of popular GitHub applications? A first assessment. e1233 - Jaderick P. Pabico:
The set of (N/2i)-distance graphs of CN and its application to efficient information broadcast among N nodes over KN. e1372 - Jaderick P. Pabico, Eliezer A. Albacea:
A nomenclature for the standard linguistic description of the kinematics of networks. e1374 - Oussama Metatla
, Nick Bryan-Kinns, Tony Stockman, Fiore Martin:
Sonification of reference markers for auditory graphs: Effects on non-visual point estimation tasks. e1376 - Martin Eisenacher
, Jörg Rahnenführer
, Axel Mosig, Sven Rahmann
:
Poster abstracts of GCB 2015. e1350 - Christopher Schröder, Sven Rahmann:
Efficient duplicate rate estimation from subsamples of sequencing libraries. e1298 - Derek Doran, Nathan Rude:
Request type prediction for Web robot and Internet of Things traffic. e1386 - Felipe De Mendiburu, Reinhard Simon
:
Agricolae - Ten years of an open source statistical tool for experiments in breeding, agriculture and biology. e1404 - Alice C. Eldridge, Michael A. Casey, Paola Moscoso, Mika Peck:
A new direction for Soundscape Ecology? Toward the extraction and evaluation of ecologically-meaningful soundscape objects using sparse coding methods. e1407
- Muthukumaran Kasinathan, Lalita Bhanu Murthy Neti:
Impact of restricted forward greedy feature selection technique on bug prediction. e1411 - Jonathan Tamary, Dror G. Feitelson:
The rise of Chrome. e966 - Koos Vanderwilt:
Outline for an information theoretic search engine. e1400 - Harald Klimach, Jens Zudrop, Sabine Roller:
Generation of high order geometry representations in octree meshes. e1316 - Nuno Fachada
, Vitor V. Lopes
, Rui Costa Martins, Agostinho C. Rosa:
Towards a standard model for research in agent-based modeling and simulation. e1440 - Elisha D. Roberson:
Identification of high-efficiency 3'GG gRNA motifs in indexed FASTA files with ngg2. e969 - Yubin Huang:
Testing a new idea to solve the P = NP problem with mathematical induction. e1455 - Karan Aggarwal, Mohammad Salameh, Abram Hindle:
Using machine translation for converting Python 2 to Python 3 code. e1459 - Naga Durga Prasad Avirneni, Prem Ramesh, Arun K. Somani:
Managing contamination delay to improve Timing Speculation architectures. e1412 - Edmund Hart, Pauline Barmby, David S. LeBauer, François Michonneau
, Sarah Mount
, Timothée Poisot
, Kara H. Woo
, Naupaka Zimmerman, Jeffrey W. Hollister:
Ten simple rules for digital data storage. e1448 - 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
- Kimio Kuramitsu, Shin-ya Hamaguchi:
XML schema validation using parsing expression grammars. e1503 - Roman V. Krynochkin
:
Frequency components with negative resistance for intellectual measurement systems. e1506 - Giuseppe Destefanis, Marco Ortu, Steve Counsell, Michele Marchesi, Roberto Tonelli:
Software development: do good manners matter? e1515 - Alexandru Topirceanu, Mihai Udrescu, Mircea Vladutiu, Radu Marculescu:
Tolerance-based interaction: A new model targeting opinion formation and diffusion in social networks. e1322 - Zeeshan Ahmed
:
Project report: intelligent semantic oriented agent based Search. e1518 - Mahawaga Arachchige Pathum Chamikara, Akalanka Galappaththi, Roshan D. Yapa, Ruwan D. Nawarathna, Saluka Ranasinghe Kodituwakku, Jagath Gunatilake, Liwan H. Liyanage:
A crime data analysis framework with geographical information support for intelligence led policing. e1529 - Mahawaga Arachchige Pathum Chamikara
, Akalanka Galappaththi, Roshan D. Yapa, Ruwan D. Nawarathna, Saluka Ranasinghe Kodituwakku, Jagath Gunatilake, Aththanapola Arachchilage Chathranee Anumitha Jayathilake, Liwan H. Liyanage:
Fuzzy based binary feature profiling for modus operandi analysis. e1532 - Sebastiano Panichella:
Textual analysis or natural language parsing? A software engineering perspective. e1534 - Abram Hindle:
Green software engineering: the curse of methodology. e1470 - Ron Henkel, Fabienne Lambusch, Dagmar Waltemath:
Finding pattern in biochemical reaction networks - a sub-graph mining approach. e1479 - Andrew MacDonald
:
PhilDB - The time series database with built-in change logging. e1488 - Stefan Wagner
, Asim Abdulkhaleq, Ivan Bogicevic, Jan-Peter Ostberg, Jasmin Ramadani:
How are functionally similar code clones different? e1516
- Malgorzata Habich, Sergej Djuranovic, Pawel Szczesny
:
PATACSDB - The database of polyA translational attenuators in coding sequences. e1557 - Don L. Jewett:
Improving knowledge-creation and post-graduate education in science and medicine by means of webpendeons and meta-links. e1568 - Andrey Chistyakov:
Multilayered model of speech. e1576 - Eddie A. Santos
, Abram Hindle:
Multi-token code suggestions using statistical language models. e1597 - Concita Cantarella, Rachele Tamburino, Nunzia Scotti, Teodoro Cardi, Nunzio D'Agostino:
Strategies and difficulties in assembling highly recombinogenic plant organelle genomes: a case study. e1599 - Orlando Schwery, Brian C. O'Meara:
MonoPhy: A simple R package to find and visualize monophyly issues. e1600 - Sakshi Singh, Giovanni Colonna
, Gennaro Ciliberto, Susan Costantini:
The linkage of human circadian rhythms and hepatocellular carcinoma (HCC) through network analysis. e1604 - Sasikanth Goteti
:
On Machine Learning applications with algebraic geometry. e1618 - Giuseppe Scanniello, Simone Romano, Davide Fucci, Burak Turhan, Natalia Juristo Juzgado:
Students' and professionals' perceptions of test-driven development: a focus group study. e1619
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