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[PRE REVIEW]: EMGFlow: A Python package for pre-processing and feature extraction of electromyographic signals #7054

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editorialbot opened this issue Jul 30, 2024 · 50 comments
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[PRE REVIEW]: EMGFlow: A Python package for pre-processing and feature extraction of electromyographic signals #7054

editorialbot opened this issue Jul 30, 2024 · 50 comments
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@faroit @samiralavi @wbaccinelli
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pre-review Python TeX Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials

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editorialbot commented Jul 30, 2024 •
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Submitting author: @WiIIson (D. William Lawrence Conley)
Repository: https://github.com/WiIIson/EMGFlow-Python-Package
Branch with paper.md (empty if default branch):
Version: v1.0.16
Editor: @faroit
Reviewers: @wbaccinelli, @samiralavi
Managing EiC: Kevin M. Moerman

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status

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HTML: <a href="https://joss.theoj.org/papers/d63dac2393dede4adb8ebc6910f3b65c"><img src="https://joss.theoj.org/papers/d63dac2393dede4adb8ebc6910f3b65c/status.svg"></a>
Markdown: [![status](https://joss.theoj.org/papers/d63dac2393dede4adb8ebc6910f3b65c/status.svg)](https://joss.theoj.org/papers/d63dac2393dede4adb8ebc6910f3b65c)

Author instructions

Thanks for submitting your paper to JOSS @WiIIson. Currently, there isn't a JOSS editor assigned to your paper.

@WiIIson if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). You can search the list of people that have already agreed to review and may be suitable for this submission.

Editor instructions

The JOSS submission bot @editorialbot is here to help you find and assign reviewers and start the main review. To find out what @editorialbot can do for you type:

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@editorialbot editorialbot added pre-review Track: 2 (BCM) Biomedical Engineering, Biosciences, Chemistry, and Materials labels Jul 30, 2024
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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:

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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

- 10.1109/TAFFC.2015.2392932 is OK
- 10.1016/j.softx.2024.101712 is OK
- 10.1109/ACCESS.2022.3146729 is OK
- 10.1109/TAFFC.2015.2457417 is OK
- 10.1111/j.1469-8986.1986.tb00676.x is OK
- 10.5281/zenodo.6403363 is OK
- 10.1007/s12253-019-00668-3 is OK
- 10.1109/T-AFFC.2011.15 is OK
- 10.3389/fpsyg.2016.00780 is OK
- 10.3758/s13428-020-01516-y is OK
- 10.3389/fneur.2020.576729 is OK
- 10.1038/s41598-021-85163-z is OK
- 10.1145/3242969.3242985 is OK
- 10.1038/s41597-019-0209-0 is OK
- 10.3389/fict.2017.00001 is OK
- 10.1044/1092-4388(2011/11-0214) is OK
- 10.1073/pnas.0908994106 is OK
- 10.1186/1743-0003-7-21 is OK
- 10.1109/SSCI.2016.7849931 is OK

MISSING DOIs

- No DOI given, and none found for title: A practicum on the use of sEMG signals in movement...
- No DOI given, and none found for title: An electromyographic index for localized muscle fa...
- No DOI given, and none found for title: A novel feature extraction for robust EMG pattern ...
- No DOI given, and none found for title: PhysioData Toolbox
- 10.1152/jappl.1983.54.1.51 may be a valid DOI for title: Changes in electromyogram power spectra of facial ...

INVALID DOIs

- None

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Software report:

github.com/AlDanial/cloc v 1.90  T=0.03 s (910.9 files/s, 217554.7 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Markdown                        11           1210              0           2176
Python                          11            668           1550           1249
TeX                              1             24              0            342
YAML                             2             17              0             92
TOML                             1              2              0             28
JSON                             4              0              0             24
INI                              1              3              0             19
-------------------------------------------------------------------------------
SUM:                            31           1924           1550           3930
-------------------------------------------------------------------------------

Commit count by author:

   143	WiIIson

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Paper file info:

📄 Wordcount for paper.md is 1653

✅ 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:

pyemgpipeline: A Python package for electromyography processing
Submitting author: @tlwu
Handling editor: @osorensen (Active)
Reviewers: @tuliofalmeida, @osorensen
Similarity score: 0.7688

mhealthtools: A Modular R Package for Extracting Features from Mobile and Wearable Sensor Data
Submitting author: @philerooski
Handling editor: @trallard (Retired)
Reviewers: @Ebedthan, @AKuederle
Similarity score: 0.7501

ReSurfEMG: A Python library for preprocessing and analysis of respiratory EMG.
Submitting author: @drcandacemakedamoore
Handling editor: @AJQuinn (Retired)
Reviewers: @ixjlyons, @ajbaird
Similarity score: 0.7391

Biosiglive: an Open-Source Python Package for Real-time Biosignal Processing
Submitting author: @aceglia
Handling editor: @Kevin-Mattheus-Moerman (Active)
Reviewers: @finsberg, @marcoghislieri
Similarity score: 0.7384

biopeaks: a graphical user interface for feature extraction from heart- and breathing biosignals
Submitting author: @JanCBrammer
Handling editor: @oliviaguest (Active)
Reviewers: @TomDonoghue, @sappelhoff, @jamesheathers
Similarity score: 0.7117

⚠️ 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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@editorialbot invite @faroit as editor

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Invitation to edit this submission sent!

@faroit
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faroit commented Jul 30, 2024

@Kevin-Mattheus-Moerman This is not in my domain of applications but the signal processing techniques are similar so I can edit this.

I'm on vacation this week so I will start next week

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faroit commented Jul 30, 2024

@editorialbot assign @faroit as editor

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Assigned! @faroit is now the editor

@WiIIson
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WiIIson commented Aug 8, 2024 •
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Hi,

Thanks for considering our submission for publication. Here is a list of reviewers we believe would be relevant to the work:

@faroit
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faroit commented Aug 26, 2024

👋 hi @WiIIson, just to let you know, I am now starting the reviewer-finding process.

@WiIIson
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WiIIson commented Sep 11, 2024

Thank you for starting the review process. We realized that reviewers must have a GitHub account, so here are some new reviewers who have GitHub pages:

@srlivingstone
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Hi @faroit - I'm checking in on the pre-review process. Would you please provide an update on the search for reviewers?

@faroit
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faroit commented Sep 20, 2024

@srlivingstone thanks for pushing here. I was unable to check back here and I'm sorry, i didn't notified anyone. I'm back on this pre-review now.

@WiIIson I didn't had any luck so far finding reviewers outside on private channels, so I'm happy to go forward with your proposals

@faroit
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faroit commented Sep 20, 2024

@drcandacemakedamoore @itismeghasyam @tlwu @msoley @DominiqueMakowski @capcarr - would any of you be willing to review this submission for JOSS? The JOSS review process takes place on GitHub and focuses on the software and a short paper. We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html

The software under review is https://github.com/WiIIson/EMGFlow-Python-Package

This issue is a "pre-review" issue in which reviewers are assigned. Once sufficient reviewers are recruited we will open a dedicated review issue where the review will take place.

@srlivingstone
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Hi @faroit, not sure if you heard back on those invitations; would another round of names from us be helpful?

@drcandacemakedamoore
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drcandacemakedamoore commented Oct 7, 2024 via email

@faroit
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faroit commented Oct 12, 2024

@srlivingstone yes, please. I also contacted a few folks in academia to help but without success so far.

@drcandacemakedamoore
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I have spoken to Dr. Walter Baccinelli at the eScience Center. He said he would be willing to review the package. Please contact me for his email.

@faroit
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faroit commented Oct 16, 2024

@wbaccinelli We received a post from @drcandacemakedamoore (see above) that you would be willing to review this submission for JOSS? The JOSS review process takes place on GitHub and focuses on the software and a short paper. We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html

The software under review is https://github.com/WiIIson/EMGFlow-Python-Package

This issue is a "pre-review" issue in which reviewers are assigned. Once sufficient reviewers are recruited we will open a dedicated review issue where the review will take place.

Please let us know. Thanks in advance

@wbaccinelli
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Hi @faroit, I confirm that I am available for reviewing the submission.

@faroit
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faroit commented Oct 20, 2024

@wbaccinelli thats great news!

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faroit commented Oct 20, 2024

@editorialbot add @wbaccinelli as reviewer

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@wbaccinelli added to the reviewers list!

@WiIIson
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WiIIson commented Oct 23, 2024 •
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Hi @faroit, here are some additional potential reviewers that may be relevant to this project:

@srlivingstone
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Hi @faroit, we've provided a longer list of potential reviewers for you to consider. All of these either published in JOSS, or have previously reviewed for JOSS, and so should be familiar with git.

@faroit
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faroit commented Nov 21, 2024

@emdupre @osorensen @cbrnr @vferat @mscaudill @charlienew @richrobe @AJQuinn @tuliofalmeida @TomDonoghue @sappelhoff @marcoghislieri would any of you be willing to review this submission for JOSS? The JOSS review process takes place on GitHub and focuses on the software and a short paper. We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html

The software under review is https://github.com/WiIIson/EMGFlow-Python-Package

This issue is a "pre-review" issue in which reviewers are assigned. Once sufficient reviewers are recruited we will open a dedicated review issue where the review will take place.

@osorensen
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@faroit, thanks for asking but I'm a JOSS editor, so will decline this one.

@marcoghislieri
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marcoghislieri commented Nov 22, 2024 via email

@sappelhoff
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Dear all, I have to decline too, due to several other obligations that take precedence. Good luck!

@tuliofalmeida
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Hey @faroit. Unfortunately I won't be able to review it in the next few months. But thank you very much for the invitation and the authors for the mention. Thanks

@WiIIson
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WiIIson commented Dec 2, 2024

Hi @faroit

As two weeks have passed, you may need another set of potential reviewers. Here are 12 more candidates:

@faroit
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faroit commented Dec 6, 2024

@marcosvital @lucask07 @britta-wstnr @cudmore @LegrandNico @Bsingstad @MousaviSajad @Tam-Pham @JanCBrammer @hungpham2511 @CisottoGiulia @MavridisChristos
would any of you be willing to review this submission for JOSS? The JOSS review process takes place on GitHub and focuses on the software and a short paper. We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html

The software under review is https://github.com/WiIIson/EMGFlow-Python-Package

This issue is a "pre-review" issue in which reviewers are assigned. Once sufficient reviewers are recruited we will open a dedicated review issue where the review will take place.

@faroit
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faroit commented Dec 6, 2024

@WiIIson thanks a lot for your extended list. This is extremely helpful in this case as your submission is slightly out of my research domain. I guess you checked the list already for potential COI's according to the JOSS policy?

@WiIIson
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WiIIson commented Jan 7, 2025 •
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Hi @faroit

The list of potential COI's are all taken from other related paper assignees, so there shouldn't be any problems.

Here are some new potential COI's:

@faroit
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faroit commented Jan 10, 2025

@mbobra @mahfuz05062 @samiralavi @kellyrowland @lucaferranti @szorowi1 @samhforbes @janfreyberg @axelloewe @arokem would any of you be willing to review this submission for JOSS? The JOSS review process takes place on GitHub and focuses on the software and a short paper. We carry out our checklist-driven reviews here in GitHub issues and follow these guidelines: https://joss.readthedocs.io/en/latest/reviewer_guidelines.html

The software under review is https://github.com/WiIIson/EMGFlow-Python-Package

This issue is a "pre-review" issue in which reviewers are assigned. Once sufficient reviewers are recruited we will open a dedicated review issue where the review will take place.

@samiralavi
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@faroit I have taken a look at the submission and I am happy to review it

@janfreyberg
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@faroit likewise happy to review it, looks interesting!

@britta-wstnr
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Hi @faroit - sorry I missed your ping back in December. I am quite busy with JOSS editing right now, so I unfortunately have to turn this invitation to review down.

@arokem
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arokem commented Jan 13, 2025

Thanks for the invitation to review this. I don't have bandwidth to look at this before February 5th, but if you need me after that point please ping me again.

@lucask07
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Hello @faroit, thank you for the invitation. I don't have enough time to review this JOSS submission.

@srlivingstone
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Hi @faroit, several new people have indicated their availability to review our manuscript. Would you please extend the formal invitations so our submission can formally move to the review stage?

@faroit
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faroit commented Jan 18, 2025

@editorialbot add @samiralavi to reviewers

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@samiralavi added to the reviewers list!

@faroit
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faroit commented Jan 18, 2025

@editorialbot start review

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OK, I've started the review over in #7696.

@faroit
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faroit commented Jan 18, 2025

@janfreyberg @arokem thanks for wanting to help out. We found another reviewer already 🙏

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