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  • Revisiting the zonally asymmetric extratropical circulation of the Southern Hemisphere spring using complex empirical orthogonal functions

    Authors: Elio Campitelli, Leandro Díaz, Carolina Vera
    DOI: 10.1007/s00382-023-06780-0
    Submitted by eliocamp      
      Mean reproducibility score:   1.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    I used a lot of different tools and strategies to make this paper easily reproducible at different levels. There's Docker container for the highest level of reproducibility, and package versions are managed with renv. The data used in the paper is hosted on Zenodo to avoid long queue times when downloading from the Climate Data Store and future-proof for when it goes away and checksumed before using it.

    Tags: R Docker climate
  • The viewing angle in AGN SED models, a data-driven analysis

    Authors: Andrés Felipe Ramos Padilla, Lingyu Wang, Katarzyna Małek, Andreas Efstathiou, Guang Yang
    Submitted by aframosp    
      Mean reproducibility score:   9.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    Most of the material is available through Jupyter notebooks in GitHub, and it should be easy to reproduce with the help of Binder. With the notebooks, you could experiment with different parameters to the ones analyzed in the paper. It also contains a large dataset of physical parameters of galaxies analysed in this work. We expect this work to be easily reproducible in the steps described in the repository.

  • 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
  • The role of conidia in the dispersal of Ascochyta rabiei

    Authors: Khaliq, I., Fanning, J., Melloy, P. et al.
    DOI: 10.1007/s10658-020-02126-2
    Submitted by hub-admin    

    Why should we attempt to reproduce this paper?

    I suggested a few papers last year. I’m hoping that we’ve improved our reproducibility with this one, this year. We’ve done our best to package it up both in Docker and as an R package. I’d be curious to know what the best way to reproduce it is found to be. Working through vignettes or spinning up a Docker instance. Which is the preferred method?

    Tags: R Docker
  • Dynamic redistribution of plasticity in a cerebellar spiking neural network reproducing an associative learning task perturbed by TMS

    Authors: Alberto Antonietti, Jessica Monaco, Egidio D'Angelo, Alessandra Pedrocchi, and Claudia Casellato
    Submitted by @_Aalph    

    Why should we attempt to reproduce this paper?

    Paper and codes+data have been published 4 years ago, will they still work? I always try to release data and codes to reproduce my papers, but I seldom receive feedback. It would be useful to have comments from a reproducers' team, in order to improve sharing for future research (I switched from MATLAB to Python already).

  • 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
  • Hyperparameter importance Across Datasets

    Authors: Jan N van Rijn and Frank Hutter
    DOI: 10.1145/3219819.3220058
    Submitted by hub-admin    
      Mean reproducibility score:   7.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    I tried hard to make this paper as reproducible as possible, but as techniques and dependencies become more complex, it is hard to make it 100% clear. Any form of feedback is more than welcome.

  • 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. https://doi.org/10.1371/journal.pcbi.1003774). 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., https://journals.aps.org/pre/abstract/10.1103/PhysRevE.97.012408 and https://doi.org/10.1101/701037).

    Tags: C Matlab
  • Growth Dynamics of Independent Gametophytes of Pleurosoriopsis makinoi ( Polypodiaceae)

    Authors: Atsushi Ebihara, Joel H. Nitta, Yurika Matsumoto, Yuri Fukazawa, Marie Kurihara, Hitomi Yokote, Kaoru Sakuma, Otowa Azakami, Yumiko Hirayama, Ryoko Imaichi
    Submitted by joelnitta    
      Mean reproducibility score:   10.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    It uses the drake R package that should make reproducibility of R projects much easier (just run make.R and you're done). However, it does depend on very specific package versions, which are provided by the accompanying docker image.

    Tags: R Docker Drake
  • Population structure and phenotypic variation of Sclerotinia sclerotiorum from dry bean (Phaseolus vulgaris) in the United States

    Authors: Kamvar ZN, Amaradasa BS, Jhala R, McCoy S, Steadman JR, Everhart SE
    DOI: 10.7717/peerj.4152
    Submitted by hub-admin    
      Mean reproducibility score:   6.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    This paper is reproduced weekly in a docker container on continuous integration, but it is also set up to work via local installs as well. It would be interesting to see if it's reproducible with a human operator who knows nothing of the project or toolchain.

    Tags: R make Docker

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