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[PRE REVIEW]: pySegmentationUpsampler: Resampling segmented medical image data for treatment planning in ultrasound therapy #8013

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editorialbot opened this issue Apr 6, 2025 · 7 comments
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Matlab pre-review Python TeX Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials

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Submitting author: @Donny-bla (Liangpu Liu)
Repository: https://github.com/Donny-bla/segmentation-upsampler.git
Branch with paper.md (empty if default branch):
Version: v0.0.8
Editor: Pending
Reviewers: Pending
Managing EiC: Kevin M. Moerman

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status

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HTML: <a href="https://joss.theoj.org/papers/be46b9e1532a5df5abaefb6a394e85b6"><img src="https://joss.theoj.org/papers/be46b9e1532a5df5abaefb6a394e85b6/status.svg"></a>
Markdown: [![status](https://joss.theoj.org/papers/be46b9e1532a5df5abaefb6a394e85b6/status.svg)](https://joss.theoj.org/papers/be46b9e1532a5df5abaefb6a394e85b6)

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@editorialbot editorialbot added pre-review Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials labels Apr 6, 2025
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Hello human, I'm @editorialbot, a robot that can help you with some common editorial tasks.

For a list of things I can do to help you, just type:

@editorialbot commands

For example, to regenerate the paper pdf after making changes in the paper's md or bib files, type:

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Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

✅ OK DOIs

- 10.1080/02656736.2022.2112309 is OK
- 10.1101/2024.06.08.597305 is OK
- 10.1121/10.0013426 is OK
- 10.1088/1361-6560/ad506f is OK
- 10.1103/PhysRevApplied.12.014016 is OK
- 10.1121/1.4976339 is OK
- 10.1109/EMBC.2016.7591443 is OK
- 10.1038/s41592-019-0686-2 is OK
- 10.1162/089976603321891855 is OK
- 10.1109/LDAV.2015.7348069 is OK
- 10.54294/216g01 is OK
- 10.1117/1.3360308 is OK
- 10.48550/arXiv.2103.06360 is OK
- 10.1109/EMBC.2016.7591444 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: The Visualization Toolkit

❌ MISSING DOIs

- 10.1109/3dv.2016.79 may be a valid DOI for title: V-Net: Fully Convolutional Neural Networks for Vol...

❌ INVALID DOIs

- None

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Software report:

github.com/AlDanial/cloc v 1.98  T=0.05 s (803.4 files/s, 224552.1 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
SVG                              8              2              4           8249
MATLAB                          11            101            394            556
Python                          11            264            784            544
TeX                              1             16              0            199
Markdown                         2             66              0             99
YAML                             3             15             35             75
Text                             4              1              0             27
TOML                             1              2              1             26
-------------------------------------------------------------------------------
SUM:                            41            467           1218           9775
-------------------------------------------------------------------------------

Commit count by author:

   269	Donny-bla
    38	Rui Xu
     1	Donny

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Paper file info:

⚠️ Wordcount for paper.md is 1832

✅ The paper includes a Statement of need section

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License info:

🟡 License found: GNU General Public License v3.0 (Check here for OSI approval)

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👉📄 Download article proof 📄 View article proof on GitHub 📄 👈

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Five most similar historical JOSS papers:

DICaugment: A Python Package for 3D Medical Imaging Augmentation
Submitting author: @jjmcintosh
Handling editor: @osorensen (Active)
Reviewers: @MaierOli2010, @kuadrat
Similarity score: 0.6844

Nanomesh: A Python workflow tool for generating meshes from image data
Submitting author: @stefsmeets
Handling editor: @prashjha (Active)
Reviewers: @jameshgrn, @vijaysm
Similarity score: 0.6759

SAMBA: A Trainable Segmentation Web-App with Smart Labelling
Submitting author: @rmdocherty
Handling editor: @Kevin-Mattheus-Moerman (Active)
Reviewers: @pchlap, @jingpengw
Similarity score: 0.6640

Disimpy: A massively parallel Monte Carlo simulator for generating diffusion-weighted MRI data in Python
Submitting author: @kerkelae
Handling editor: @Kevin-Mattheus-Moerman (Active)
Reviewers: @DARSakthi, @grlee77, @ritagnunes
Similarity score: 0.6537

Volume Segmantics: A Python Package for Semantic Segmentation of Volumetric Data Using Pre-trained PyTorch Deep Learning
Models

Submitting author: @OllyK
Handling editor: @osorensen (Active)
Reviewers: @jingpengw, @estenhl
Similarity score: 0.6504

⚠️ Note to editors: If these papers look like they might be a good match, click through to the review issue for that paper and invite one or more of the authors before considering asking the reviewers of these papers to review again for JOSS.

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