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  • Living HTA: Automating Health Technology Assessment with R

    Authors: Robert A. Smith, Paul P. Schneider, Wael Mohammed
    DOI: 10.12688/wellcomeopenres.17933.1
    Submitted by rasmith3    

    Why should we attempt to reproduce this paper?

    We think this is an interesting paper for anyone who wants to learn to build an API with the R package plumber. This is a novel method in health economics, but we believe will help improve the transparency of modelling methods in our field.

  • Investigation into the annotation of protocol sequencing steps in the sequence read archive

    Authors: Alnasir, Jamie, and Hugh P. Shanahan.
    Submitted by hub-admin  

    Why should we attempt to reproduce this paper?

    Metadata annotation is key to reproducibility in sequencing experiments. Reproducing this research using the scripts provided will also show the current level of annotation in years since 2015 when the paper was published.

    Tags: Python SQL
  • Analytical solutions for the isobaric evaporation of pure cryogens in storage tanks

    Authors: Felipe Huerta, Velisa Vesovic,
    DOI: 10.1016/j.ijheatmasstransfer.2019.118536
    Submitted by hub-admin    

    Why should we attempt to reproduce this paper?

    1. Because it contains customized numerical methods to implement analytical solutions for an engineering problem relevant to cryogenic storage. This will become increasingly relevant in the future with the increase in the use of liquid hydrogen and LNG as fuel. 2. The storage tank is implemented as a Class and there is an opportunity to understand the object oriented programming mindset of the authors. 3. In the provided Jupyter Notebook, thermodynamic data for nitrogen and methane are provided which enable the users the quick implementation. 4. To reproduce some of the figures and results, the storage tanks need to be modified with inputs available in the paper.

    Tags: Python Matlab
  • Plasmonic nanostructure design and characterization via Deep Learning

    Authors: Malkiel, I., Mrejen, M., Nagler, A. et al.
    DOI: 10.1038/s41377-018-0060-7
    Submitted by hub-admin    

    Why should we attempt to reproduce this paper?

    The current code is written in Torch, which is no longer actively maintained. Since deep learning in nanophotonics is an area of active interest (e.g. for the design of new metamaterials), it is important to update the code to use a more modern deep learning library such as tensorflow/keras

  • Good Me Bad Me: Prioritization of the Good-Self During Perceptual Decision-Making

    Authors: Hu, C.-P., Lan, Y., Macrae, C. N., & Sui, J.
    DOI: 10.1525/collabra.301
    Submitted by hub-admin    
      Mean reproducibility score:   7.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    It'll a great helpful to independently check the scientific record I've published, so that errors, if there are any, could be corrected. Also, I will learn how to share the data in a more accessible to other if you could give me feedback.

    Tags: Python R Matlab
  • Where should new parkrun events be located? Modelling the potential impact of 200 new events on socio-economic inequalities in access and participation

    Authors: Schneider PP, Smith RA, Bullas AM, Bayley T, Haake SS, Brennan A, Goyder E
    Submitted by hub-admin    
      Mean reproducibility score:   7.0/10   |   Number of reviews:   3
    Why should we attempt to reproduce this paper?

    If all went right, the analysis should be fully reproducible without the need to make any adjustments. The paper aims to find optimal locations for new parkruns, but we were not 100% sure how 'optimal' should be defined. We provide a few examples, but the code was meant to be flexible enough to allow potential decision makers to specify their own, alternative objectives. The spatial data set is also quite interesting and fun to play around with. Cave: The full analysis takes a while to run (~30+ min) and might require >= 8gb ram.

  • Cell Contractility Facilitates Alignment of Cells and Tissues to Static Uniaxial Stretch

    Authors: Rens, E. G., & Merks, R. M. H.
    Submitted by hub-admin    
      Mean reproducibility score:   1.0/10   |   Number of reviews:   2
    Why should we attempt to reproduce this paper?

    This paper shows a fun and interesting simulation result. I find it (of course) very important that our results are reproducible. In this paper, however, we did not include the exact code for these specific simulations, but the results should be reproducible using the code of our previous paper in PLOS Computational Biology (Van Oers, Rens et al. I am genuinely curious to see if there is sufficient information for the Biophys J paper or if we should have done better. Other people have already successfully built upon the 2014 (PLOS) paper using our code; see e.g., and

    Tags: C Matlab
  • Open Trade Statistics

    Authors: PachĂĄ (Mauricio Vargas SepĂșlveda)
    Submitted by hub-admin    

    Why should we attempt to reproduce this paper?

    The focus of the project is reproducibility. Here we show the differences to access data compared to similar initiatives: Also, similar projects have obscure parts, while our exposes the code from raw data downloading to dashboard creation.

    Tags: R Shiny

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