---
title: "PeerJ Computer Science 2016 — all accepted papers"
description: "All 63 papers of PeerJ Computer Science 2016, the most cited first; those with our summary link to it."
canonical: "https://research.elamur.ai/free/en/venues/peerj-computer-science/2016/papers/"
---
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# PeerJ Computer Science 2016: all accepted papers

63 papers · the most cited first · [← PeerJ Computer Science 2016](https://md.research.elamur.ai/free/en/venues/peerj-computer-science/2016/)

1. **[Probabilistic programming in Python using PyMC3 ↗](https://doi.org/10.7717/peerj-cs.55)**John Salvatier, Thomas V. Wiecki, Christopher Fonnesbeck*2,508 citations*
2. **[Predicting judicial decisions of the European Court of Human Rights: a Natural Language Processing perspective](https://md.research.elamur.ai/free/en/papers/aletras-2016-predicting-judicial-decisions-european/)**Νικόλαος Αλέτρας, Dimitrios Tsarapatsanis, Daniel Preoțiuc-Pietro et al.*810 citations · our summary*
3. **[OncoLnc: linking TCGA survival data to mRNAs, miRNAs, and lncRNAs ↗](https://doi.org/10.7717/peerj-cs.67)**Jordan Anaya*639 citations*
4. **[Software citation principles ↗](https://doi.org/10.7717/peerj-cs.86)**Arfon M. Smith, Daniel S. Katz, Kyle Evan Niemeyer et al.*276 citations*
5. **[Multiple comparative metagenomics using multiset k -mer counting ↗](https://doi.org/10.7717/peerj-cs.94)**Gaëtan Benoit, Pierre Peterlongo, Mahendra Mariadassou et al.*118 citations*
6. **[Clawpack: building an open source ecosystem for solving hyperbolic PDEs ↗](https://doi.org/10.7717/peerj-cs.68)**Kyle T. Mandli, Aron Ahmadia, Marsha Berger et al.*109 citations*
7. **[Software development: do good manners matter? ↗](https://doi.org/10.7717/peerj-cs.73)**Giuseppe Destefanis, Marco Ortu, Steve Counsell et al.*88 citations*
8. **[Decentralized provenance-aware publishing with nanopublications ↗](https://doi.org/10.7717/peerj-cs.78)**Tobias Kuhn, Christine H. Chichester, Michael O. Krauthammer et al.*86 citations*
9. **[Machine learning can differentiate venom toxins from other proteins having non-toxic physiological functions ↗](https://doi.org/10.7717/peerj-cs.90)**Ranko Gaćeša, David J. Barlow, Paul F. Long*68 citations*
10. **[OSoMe: the IUNI observatory on social media ↗](https://doi.org/10.7717/peerj-cs.87)**Clayton A. Davis, Giovanni Luca Ciampaglia, Luca Maria Aiello et al.*66 citations*
11. **[Incorporating popularity in a personalized news recommender system ↗](https://doi.org/10.7717/peerj-cs.63)**Nirmal Jonnalagedda, Susan Gauch, Kevin Labille et al.*57 citations*
12. **[Software process improvement: a systematic mapping study on the state of the art ↗](https://doi.org/10.7717/peerj-cs.62)**Marco Kuhrmann, Philipp Diebold, Jürgen Münch*56 citations*
13. **[SNF: synthesizing high performance NFV service chains ↗](https://doi.org/10.7717/peerj-cs.98)**Georgios P. Katsikas, Marcel Enguehard, Maciej Kuźniar et al.*52 citations*
14. **[A technology prototype system for rating therapist empathy from audio recordings in addiction counseling ↗](https://doi.org/10.7717/peerj-cs.59)**Bo Xiao, Che-Wei Huang, Zac E. Imel et al.*50 citations*
15. **[Competition and cooperation with virtual players in an exergame ↗](https://doi.org/10.7717/peerj-cs.92)**Lindsay Alexander Shaw, Jude Buckley, Paul Michael Corballis et al.*49 citations*
16. **[Deep learning for constructing microblog behavior representation to identify social media user’s personality ↗](https://doi.org/10.7717/peerj-cs.81)**Xiaoqian Liu, Tingshao Zhu*45 citations*
17. **[Detecting periodicities with Gaussian processes ↗](https://doi.org/10.7717/peerj-cs.50)**Nicolas Durrande, James J. Hensman, Magnus Rattray et al.*39 citations*
18. **[MonoPhy : a simple R package to find and visualize monophyly issues ↗](https://doi.org/10.7717/peerj-cs.56)**Orlando Schwery, Brian C. O’Meara*39 citations*
19. **[DAE Tools: equation-based object-oriented modelling, simulation and optimisation software ↗](https://doi.org/10.7717/peerj-cs.54)**Dragan Nikolić*37 citations*
20. **[Collaboro: a collaborative (meta) modeling tool ↗](https://doi.org/10.7717/peerj-cs.84)**Javier Luis Izquierdo, Jordi Cabot*36 citations*
21. **[Computational drug repositioning based on side-effects mined from social media ↗](https://doi.org/10.7717/peerj-cs.46)**Timothy S. Nugent, Vassilis Plachouras, Jochen L. Leidner*34 citations*
22. **[Nanopublication beyond the sciences: the PeriodO period gazetteer ↗](https://doi.org/10.7717/peerj-cs.44)**Patrick Golden, Ryan B. Shaw*26 citations*
23. **[A systematic analysis of the science of sandboxing ↗](https://doi.org/10.7717/peerj-cs.43)**Michael Maass, Adam Sales, Benjamin Chung et al.*24 citations*
24. **[Tolerance-based interaction: a new model targeting opinion formation and diffusion in social networks ↗](https://doi.org/10.7717/peerj-cs.42)**Alexandru Topîrceanu, Mihai Udrescu, Mircea Vlăduţiu et al.*22 citations*
25. **[Alternating guided image filtering ↗](https://doi.org/10.7717/peerj-cs.72)**Alexander Toet*21 citations*
26. **[Enriching scientific publications with interactive 3D PDF: an integrated toolbox for creating ready-to-publish figures ↗](https://doi.org/10.7717/peerj-cs.64)**Axel Newe*20 citations*
27. **[A software for parameter optimization with Differential Evolution Entirely Parallel method ↗](https://doi.org/10.7717/peerj-cs.74)**Konstantin N. Kozlov, A. M. Samsonov, Maria Samsonova*18 citations*
28. **[How are functionally similar code clones syntactically different? An empirical study and a benchmark ↗](https://doi.org/10.7717/peerj-cs.49)**Stefan Wagner, Asim Abdulkhaleq, Ivan Bogicevic et al.*17 citations*
29. **[Uncertainty modeling process for semantic technology ↗](https://doi.org/10.7717/peerj-cs.77)**Rommel Novaes Carvalho, Kathryn Blackmond Laskey, Paulo Costa*17 citations*
30. **[Iterative guided image fusion ↗](https://doi.org/10.7717/peerj-cs.80)**Alexander Toet*15 citations*
31. **[Matrix Depot: an extensible test matrix collection for Julia ↗](https://doi.org/10.7717/peerj-cs.58)**Weijian Zhang, Nicholas John Higham*15 citations*
32. **[Complexity curve: a graphical measure of data complexity and classifier performance ↗](https://doi.org/10.7717/peerj-cs.76)**Julian Zubek, Dariusz Plewczyński*14 citations*
33. **[Research collaboration and topic trends in Computer Science based on top active authors ↗](https://doi.org/10.7717/peerj-cs.41)**Yan Wu, Srinivasan Venkatramanan, Dah Ming Chiu*14 citations*
34. **[Sonification of reference markers for auditory graphs: effects on non-visual point estimation tasks ↗](https://doi.org/10.7717/peerj-cs.51)**Oussama Metatla, Nick Bryan–Kinns, Tony Stockman et al.*13 citations*
35. **[Fuzzy based binary feature profiling for modus operandi analysis ↗](https://doi.org/10.7717/peerj-cs.65)**M.A.P. Chamikara, Akalanka Galappaththi, Roshan Yapa et al.*11 citations*
36. **[Large-scale comparative visualisation of sets of multidimensional data ↗](https://doi.org/10.7717/peerj-cs.88)**D. Vohl, David G. Barnes, Christopher J. Fluke et al.*11 citations*
37. **[A PCA-based bio-motion generator to synthesize new patterns of human running ↗](https://doi.org/10.7717/peerj-cs.102)**José María Baydal Bertomeu, Juan V. Durá‐Gil, Ana Piérola et al.*10 citations*
38. **[PATACSDB—the database of polyA translational attenuators in coding sequences ↗](https://doi.org/10.7717/peerj-cs.45)**Małgorzata Habich, Sergej Djuranović, Paweł Szczęsny*10 citations*
39. **[BioAssay Templates for the semantic web ↗](https://doi.org/10.7717/peerj-cs.61)**Alex M. Clark, Nadia K. Litterman, Janice E. Kranz et al.*9 citations*
40. **[Capturing the interplay of dynamics and networks through parameterizations of Laplacian operators ↗](https://doi.org/10.7717/peerj-cs.57)**Xiaoran Yan, Shang‐Hua Teng, Kristina Lerman et al.*9 citations*
41. **[Decomposed multi-objective bin-packing for virtual machine consolidation ↗](https://doi.org/10.7717/peerj-cs.47)**Eli M. Dow*9 citations*
42. **[Ship space to database: emerging infrastructures for studies of the deep subseafloor biosphere ↗](https://doi.org/10.7717/peerj-cs.97)**Peter T. Darch, Christine L. Borgman*9 citations*
43. **[Are you ashamed? Can a gaze tracker tell? ↗](https://doi.org/10.7717/peerj-cs.75)**Rytis Maskeliūnas, Vidas Raudonis*8 citations*
44. **[PhilDB: the time series database with built-in change logging ↗](https://doi.org/10.7717/peerj-cs.52)**Andrew MacDonald*7 citations*
45. **[TCP adaptation with network coding and opportunistic data forwarding in multi-hop wireless networks ↗](https://doi.org/10.7717/peerj-cs.89)**Chen Zhang, Yuanzhu Chen, Cheng Li*7 citations*
46. **[Investigating the effect of the reality gap on the human psychophysiological state in the context of human-swarm interaction ↗](https://doi.org/10.7717/peerj-cs.82)**Gaëtan Podevijn, Rehan O’Grady, Carole Fantini‐Hauwel et al.*6 citations*
47. **[Evolution maps and applications ↗](https://doi.org/10.7717/peerj-cs.39)**Ofer Biller, Irina Rabaev, Klara Kedem et al.*5 citations*
48. **[Give the people what they want: studying end-user needs for enhancing the web ↗](https://doi.org/10.7717/peerj-cs.91)**Tak Yeon Lee, Benjamin B. Bederson*5 citations*
49. **[Toward physiological indices of emotional state driving future ebook interactivity ↗](https://doi.org/10.7717/peerj-cs.60)**Jan B. F. van Erp, Maarten A.J. Hogervorst, Ysbrand D. van der Werf*5 citations*
50. **[A Socratic epistemology for verbal emotional intelligence ↗](https://doi.org/10.7717/peerj-cs.40)**Abe Kazemzadeh, James Gibson, Panayiotis Georgiou et al.*4 citations*
51. **[Probabilistic biomechanical finite element simulations: whole-model classical hypothesis testing based on upcrossing geometry ↗](https://doi.org/10.7717/peerj-cs.96)**Todd C. Pataky, Michihiko KOSEKI, Philip G. Cox*4 citations*
52. **[Smart Brix—a continuous evolution framework for container application deployments ↗](https://doi.org/10.7717/peerj-cs.66)**Johannes M. Schleicher, Michael Vögler, Christian Inzinger et al.*4 citations*
53. **[GRNsight: a web application and service for visualizing models of small- to medium-scale gene regulatory networks ↗](https://doi.org/10.7717/peerj-cs.85)**Kam D Dahlquist, John David N. Dionisio, Ben G Fitzpatrick et al.*3 citations*
54. **[A computational framework for colour metrics and colour space transforms ↗](https://doi.org/10.7717/peerj-cs.48)**Ivar Farup*2 citations*
55. **[Audio segmentation using Flattened Local Trimmed Range for ecological acoustic space analysis ↗](https://doi.org/10.7717/peerj-cs.70)**Giovany Vega, Carlos J. Corrada-Bravo, Thomas Mitchell Aide*2 citations*
56. **[Electronic laboratory notebooks in a public–private partnership ↗](https://doi.org/10.7717/peerj-cs.83)**Lea A. I. Vaas, Gesa Witt, Björn Windshügel et al.*2 citations*
57. **[Learning structural bioinformatics and evolution with a snake puzzle ↗](https://doi.org/10.7717/peerj-cs.100)**Gonzalo S. Nido, Ludovica Bachschmid-Romano, Ugo Bastolla et al.*2 citations*
58. **[Continuously revised assurance cases with stakeholders’ cross-validation: a DEOS experience ↗](https://doi.org/10.7717/peerj-cs.101)**Kimio Kuramitsu*1 citation*
59. **[Efficient online detection of temporal patterns ↗](https://doi.org/10.7717/peerj-cs.53)**Shlomi Dolev, Jonathan Goldfeld, Rami Puzis et al.*1 citation*
60. **[HBPF: a Home Blood Pressure Framework with SLA guarantees to follow up hypertensive patients ↗](https://doi.org/10.7717/peerj-cs.69)**Josep Cuadrado, Jordi Vilaplana, Jordi Mateo et al.*1 citation*
61. **[Information theoretic alignment free variant calling ↗](https://doi.org/10.7717/peerj-cs.71)**Justin Bedő, Benjamin Goudey, Jeremy Wazny et al.*1 citation*
62. **[Managing contamination delay to improve Timing Speculation architectures ↗](https://doi.org/10.7717/peerj-cs.79)**Naga Durga Prasad Avirneni, Prem Kumar Ramesh, Arun K. Somani*1 citation*
63. **[Implementing generalized deep-copy in MPI ↗](https://doi.org/10.7717/peerj-cs.95)**Joss Whittle, Rita Borgo, Mark W. Jones
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