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[PRE REVIEW]: ig.degree.betweenness: An R Package for Community Detection Using Degree Centrality and Betweenness #7519

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editorialbot opened this issue Nov 23, 2024 · 36 comments
Closed

[PRE REVIEW]: ig.degree.betweenness: An R Package for Community Detection Using Degree Centrality and Betweenness #7519

editorialbot opened this issue Nov 23, 2024 · 36 comments
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pre-review query-scope Submissions of uncertain scope for JOSS R rejected TeX Track: 7 (CSISM) Computer science, Information Science, and Mathematics

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Submitting author: @benyamindsmith (Benjamin Smith)
Repository: https://github.com/benyamindsmith/ig.degree.betweenness/
Branch with paper.md (empty if default branch):
Version: 0.1.0
Editor: Pending
Reviewers: Pending
Managing EiC: Daniel S. Katz

Status

status

Status badge code:

HTML: <a href="https://joss.theoj.org/papers/77e325edd1cf7ad262dff6d4bc4b61aa"><img src="https://joss.theoj.org/papers/77e325edd1cf7ad262dff6d4bc4b61aa/status.svg"></a>
Markdown: [![status](https://joss.theoj.org/papers/77e325edd1cf7ad262dff6d4bc4b61aa/status.svg)](https://joss.theoj.org/papers/77e325edd1cf7ad262dff6d4bc4b61aa)

Author instructions

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

@benyamindsmith 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: 7 (CSISM) Computer science, Information Science, and Mathematics labels Nov 23, 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:

@editorialbot commands

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

@editorialbot generate pdf

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Software report:

github.com/AlDanial/cloc v 1.90  T=0.02 s (1003.1 files/s, 188354.2 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
TeX                              2            192              2           1238
R                                6            111            158            381
Markdown                         5            101              0            273
Rmd                              2            198            215            261
YAML                             1              6              2             26
CSS                              1              6              1             21
-------------------------------------------------------------------------------
SUM:                            17            614            378           2200
-------------------------------------------------------------------------------

Commit count by author:

    70	benyamindsmith
    31	Benjamin Smith
     1	Tyler Pittman
     1	tylerpittman

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

✅ OK DOIs

- 10.5281/zenodo.7682609 is OK
- 10.1073/pnas.122653799 is OK
- 10.1088/1742-5468/2008/10/p10008 is OK
- 10.1086/jar.33.4.3629752 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: R: A Language and Environment for Statistical Comp...
- No DOI given, and none found for title: The igraph software package for complex network re...
- No DOI given, and none found for title: Centrality in Collaboration: A novel algorithm for...
- No DOI given, and none found for title: Community Detection Algorithms in Healthcare Appli...
- No DOI given, and none found for title: GitHub - rfordatascience/tidytuesday: Official rep...

❌ MISSING DOIs

- 10.32614/cran.package.igraphdata may be a valid DOI for title: igraphdata: A Collection of Network Data Sets for ...

❌ INVALID DOIs

- None

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Paper file info:

📄 Wordcount for paper.md is 1555

✅ The paper includes a Statement of need section

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License info:

🟡 License found: Other (Check here for OSI approval)

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⚠️ An error happened when generating the pdf. Author (Tyler Pittman) is missing affiliation.

@danielskatz
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👋 @benyamindsmith - note that your paper does not compile. Please follow the example paper and note that you can click on the error above to find out more about it. In addition, you could work on the possibly missing DOI that editorialbot suggests, but note that it may be incorrect. Please feel free to make changes to your .bib file, then use the command @editorialbot check references to check again, and the command @editorialbot generate pdf after making changes to the .md file or when the references are right to make a new PDF. editorialbot commands need to be the first entry in a new comment.

Also, due to the relatively small amount of code, the editors will now discuss if it meets the substantial scholarly effort criterion for review by JOSS. You should hear back in a week or two.

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@editorialbot query scope

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Submission flagged for editorial review.

@editorialbot editorialbot added the query-scope Submissions of uncertain scope for JOSS label Nov 23, 2024
@benyamindsmith
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@danielskatz

Thank you for the feedback.

Indeed I see the issue with the .md file. I edited it and pushed it to the repository to the same file location (I will attempt to see if it compiles after writing this comment)).

As far as I can tell with with the igraphdata package there is no associated DOI.

In terms of reviewers, I don't think I can find anyone in particular based on this list. That being said I believe anyone with experience with igraph and community detection algorithms would be suitable as reviewers.

@benyamindsmith
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@editorialbot generate pdf

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⚠️ An error happened when generating the pdf. Author (Tyler Pittman) is missing affiliation.

@benyamindsmith
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@editorialbot commands

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Hello @benyamindsmith, here are the things you can ask me to do:


# List all available commands
@editorialbot commands

# Get a list of all editors's GitHub handles
@editorialbot list editors

# Adds a checklist for the reviewer using this command
@editorialbot generate my checklist

# Set a value for branch
@editorialbot set joss-paper as branch

# Run checks and provide information on the repository and the paper file
@editorialbot check repository

# Check the references of the paper for missing DOIs
@editorialbot check references

# Generates the pdf paper
@editorialbot generate pdf

# Generates a LaTeX preprint file
@editorialbot generate preprint

# Get a link to the complete list of reviewers
@editorialbot list reviewers

@benyamindsmith
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@editorialbot generate pdf

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⚠️ An error happened when generating the pdf. Author (Tyler Pittman) is missing affiliation.

@benyamindsmith
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@editorialbot generate pdf

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

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Five most similar historical JOSS papers:

discourseGT: An R package to analyze discourse networks in educational contexts
Submitting author: @q1cui
Handling editor: @marcosvital (Active)
Reviewers: @schochastics, @zoometh
Similarity score: 0.7109

graphlayouts: Layout algorithms for network visualizations in R
Submitting author: @schochastics
Handling editor: @crvernon (Active)
Reviewers: @bpbond, @ndjackso
Similarity score: 0.6936

CM++ - A Meta-method for Well-Connected Community Detection
Submitting author: @chackoge
Handling editor: @arfon (Active)
Reviewers: @LuisScoccola, @chryswoods
Similarity score: 0.6922

signnet: An R package for analyzing signed networks
Submitting author: @schochastics
Handling editor: @sbenthall (Active)
Reviewers: @cosimameyer, @zpneal
Similarity score: 0.6874

BiRank: Fast and Flexible Ranking on Bipartite Networks with R and Python
Submitting author: @yangkcatiu
Handling editor: @drvinceknight (Active)
Reviewers: @gvegayon, @nikoleta-v3
Similarity score: 0.6834

⚠️ 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.

@benyamindsmith
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@editorialbot generate pdf

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

@editorialbot
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Five most similar historical JOSS papers:

discourseGT: An R package to analyze discourse networks in educational contexts
Submitting author: @q1cui
Handling editor: @marcosvital (Active)
Reviewers: @schochastics, @zoometh
Similarity score: 0.7077

CM++ - A Meta-method for Well-Connected Community Detection
Submitting author: @chackoge
Handling editor: @arfon (Active)
Reviewers: @LuisScoccola, @chryswoods
Similarity score: 0.6895

signnet: An R package for analyzing signed networks
Submitting author: @schochastics
Handling editor: @sbenthall (Active)
Reviewers: @cosimameyer, @zpneal
Similarity score: 0.6869

graphlayouts: Layout algorithms for network visualizations in R
Submitting author: @schochastics
Handling editor: @crvernon (Active)
Reviewers: @bpbond, @ndjackso
Similarity score: 0.6869

BiRank: Fast and Flexible Ranking on Bipartite Networks with R and Python
Submitting author: @yangkcatiu
Handling editor: @drvinceknight (Active)
Reviewers: @gvegayon, @nikoleta-v3
Similarity score: 0.6798

⚠️ 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.

@benyamindsmith
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@editorialbot generate pdf

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

@editorialbot
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Collaborator Author

Five most similar historical JOSS papers:

discourseGT: An R package to analyze discourse networks in educational contexts
Submitting author: @q1cui
Handling editor: @marcosvital (Active)
Reviewers: @schochastics, @zoometh
Similarity score: 0.7325

CM++ - A Meta-method for Well-Connected Community Detection
Submitting author: @chackoge
Handling editor: @arfon (Active)
Reviewers: @LuisScoccola, @chryswoods
Similarity score: 0.7307

graphlayouts: Layout algorithms for network visualizations in R
Submitting author: @schochastics
Handling editor: @crvernon (Active)
Reviewers: @bpbond, @ndjackso
Similarity score: 0.7174

signnet: An R package for analyzing signed networks
Submitting author: @schochastics
Handling editor: @sbenthall (Active)
Reviewers: @cosimameyer, @zpneal
Similarity score: 0.7052

Akmedoids R package for generating directionally-homogeneous clusters of longitudinal data sets
Submitting author: @MAnalytics
Handling editor: @karthik (Retired)
Reviewers: @karthik, @njtierney
Similarity score: 0.6947

⚠️ 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.

@benyamindsmith
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@editorialbot generate pdf

@editorialbot
Copy link
Collaborator Author

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

@editorialbot
Copy link
Collaborator Author

Five most similar historical JOSS papers:

discourseGT: An R package to analyze discourse networks in educational contexts
Submitting author: @q1cui
Handling editor: @marcosvital (Active)
Reviewers: @schochastics, @zoometh
Similarity score: 0.7304

graphlayouts: Layout algorithms for network visualizations in R
Submitting author: @schochastics
Handling editor: @crvernon (Active)
Reviewers: @bpbond, @ndjackso
Similarity score: 0.7283

CM++ - A Meta-method for Well-Connected Community Detection
Submitting author: @chackoge
Handling editor: @arfon (Active)
Reviewers: @LuisScoccola, @chryswoods
Similarity score: 0.7189

signnet: An R package for analyzing signed networks
Submitting author: @schochastics
Handling editor: @sbenthall (Active)
Reviewers: @cosimameyer, @zpneal
Similarity score: 0.7060

Akmedoids R package for generating directionally-homogeneous clusters of longitudinal data sets
Submitting author: @MAnalytics
Handling editor: @karthik (Retired)
Reviewers: @karthik, @njtierney
Similarity score: 0.7021

⚠️ 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.

@benyamindsmith
Copy link

@editorialbot generate pdf

@editorialbot
Copy link
Collaborator Author

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

@editorialbot
Copy link
Collaborator Author

Five most similar historical JOSS papers:

discourseGT: An R package to analyze discourse networks in educational contexts
Submitting author: @q1cui
Handling editor: @marcosvital (Active)
Reviewers: @schochastics, @zoometh
Similarity score: 0.7354

graphlayouts: Layout algorithms for network visualizations in R
Submitting author: @schochastics
Handling editor: @crvernon (Active)
Reviewers: @bpbond, @ndjackso
Similarity score: 0.7276

CM++ - A Meta-method for Well-Connected Community Detection
Submitting author: @chackoge
Handling editor: @arfon (Active)
Reviewers: @LuisScoccola, @chryswoods
Similarity score: 0.7216

signnet: An R package for analyzing signed networks
Submitting author: @schochastics
Handling editor: @sbenthall (Active)
Reviewers: @cosimameyer, @zpneal
Similarity score: 0.7140

Akmedoids R package for generating directionally-homogeneous clusters of longitudinal data sets
Submitting author: @MAnalytics
Handling editor: @karthik (Retired)
Reviewers: @karthik, @njtierney
Similarity score: 0.6998

⚠️ 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.

@benyamindsmith
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benyamindsmith commented Dec 1, 2024 •
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Got the pdf to be formatted as its supposed to look. I don't think this paper matches that much with the papers listed based on the similarity scores.

I don't know of any specific reviewers who would be suitable. However if there are any igraph core members or users they would be ideal.

@danielskatz
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Ok - let's see what happens with the scope review next

@danielskatz
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👋 @benyamindsmith - I'm sorry to say that after discussion amongst the JOSS editors, we have decided that this submission does not meet the substantial scholarly effort criterion for review by JOSS. Please see https://joss.readthedocs.io/en/latest/submitting.html#other-venues-for-reviewing-and-publishing-software-packages for other suggestions for how you might receive credit for your work.

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@editorialbot reject

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Paper rejected.

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