Papers



Submit a Paper!

Browse ReproHack papers

  • Laser-assisted propagation of a relativistic electron bunch in air

    Authors: R M G M Trines, A P L Robinson, J R Wilkinson, J N Kirk, D S Hills, R M Deas, S Morris, T Goffrey, K Bennett, T D Arber
    DOI: 10.1088/1361-6587/ac0b9d
    Submitted by Stuart_Morris      

    Why should we attempt to reproduce this paper?

    Most electron beam physics is considered in the context of a vacuum, but there are applications to long-range electron beam transmission in air. As particle acceleration sources become more compact, we may have the chance to take particle beams out to the real world. The example provided in the paper describes that of x-ray backscatter detectors, where significantly stronger signals could be achieved by scanning objects with electron beams. This paper forms the basis for a potential new mode of particle-beam research, and it is important to ensure the reproducibility of this work for groups who wish to explore the applications of this new technology.

  • Sensitivity and dimensionality of atomic environment representations used for machine learning interatomic potentials

    Authors: Berk Onat, Christoph Ortner and James Kermode
    DOI: 10.1063/5.0016005
    Submitted by jameskermode      

    Why should we attempt to reproduce this paper?

    Popular descriptors for machine learning potentials such as the Behler-Parinello atom centred symmetry functions (ACSF) or the Smooth Overlap of Interatomic Potentials (SOAP) are widely used but so far not much attention has been paid to optimising how many descriptor components need to be included to give good results.

  • Thermodynamics of stacking disorder in ice nuclei

    Authors: David Quigley
    DOI: 10.1063/1.4896376
    Submitted by dquigley      
      Mean reproducibility score:   3.0/10   |   Number of reviews:   1
    Why should we attempt to reproduce this paper?

    The results of this paper have been used in multiple subsequent studies as a benchmark against which other methods of performing the same calculation have been tested. Other groups have challenged the results as suffering from finite size effects, in particular the calculations on mixtures of cubic and hexagonal ice. Should there be time during in the event, participants could check this by performing calculations on larger unit cells. Each individual calculation should converge adequately within 96 hours making it amenable to a HPC ReproHack. Given modern HPC hardware many such calculations could be run concurrently on a single HPC node.

  • Highly efficient conversion of laser energy to hard X-rays in high intensity laser-solid simulations

    Authors: S. Morris, A. Robinson, C. Ridgers
    DOI: 10.1063/5.0055398
    Submitted by Stuart_Morris      

    Why should we attempt to reproduce this paper?

    There are many applications to multi-MeV X-rays. Their penetrative properties make them good for scanning dense objects for industry, and their ionising properties can destroy tumours in radiotherapy. They are also around the energy of nuclear transitions, so they can trigger nuclear reactions to break down nuclear waste into medical isotopes, or to reveal smuggled nuclear-materials for port security. Laser-driven X-ray generation offers a compact and efficient way to create a bright source of X-rays, without having to construct a large synchrotron. To fully utilise this capability, work on optimising the target design and understanding the underlying X-ray mechanisms are essential. The hybrid-PIC code is in a unique position to model the full interaction, so its ease-of-use and reproducibility are crucial for this field to develop.

  • 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
  • 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

Search for papers

Filter by tags

Python R GDAL GEOS GIS Shiny PROJ Galaxies Astronomy HPC Databases Binder Social Science Stata make Computer Science Jupyter Notebook tidyverse emacs literate earth sciences clumped isotopes org-mode geology eyetracking LaTeX Git ArcGIS Docker Drake SVN knitr C Matlab Mathematica Meta-analysis swig miniconda tensorflow keras Pandas SQL neuroscience robotics deep learning planner reiforcement learning Plasma physics Hybrid-PIC EPOCH Laser Gamma-ray X-ray radiation Petawatt Fortran plasma PIC physics Monte Carlo Atomistic Simulation LAMMPS Electron Transport DFT descriptors interatomic potentials machine learning Molecular Dynamics Python scripting AIRSS structure prediction density functional theory high-throughput machine-learning RNA bioinformatics CFD Fluid Dynamics OpenFOAM C++ DNS Mathematics Droplets Basilisk Particle-In-Cell psychology Stan Finance SAS Replication crisis Economics Malaria consumer behavior number estimation mental arithmetic psychophysics Archaeology Precipitation Epidemiology Parkrun Health Health Economics HTA plumber science of science Zipf networks city size distribution urbanism literature review Preference Visual Questionnaire Mann-Whitney Correlation Conceptual replication Cognitive psychology Multinomial processing tree (MPT) modeling #urbanism #R k-means cluster analysis city-regions Urban Knowledge Systems Topic modelling Planning Support Systems Software Citation Quarto snakemake Numerical modelling Ocean climate physical oceanography apptainer oceanography R package structural equation modeling bayes factor Forest Simulations Models of forest dynamics multi-lab study mice mechanics growth Tissue Cells Clustering Expectation-Maximization bootstrapping R software Position Weight Matrices singularity neuroimaging All tags Clear tags

Key

  Associated with an event
  Available for general review
  Public reviews welcome