[PRE REVIEW]: sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables

[editorialbot]

Submitting author: !--author-handle-->@JiangmeiRubyXiong<!--end-author-handle-- (Jiangmei Xiong) Repository: https://github.com/dragontaoran/sleev Branch with paper.md (empty if default branch): Version: v1.0.3 Editor: !--editor-->@jbytecode<!--end-editor-- Reviewers: @alemermartinez, @aalfons Managing EiC: Chris Vernon

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Markdown: [![status](https://joss.theoj.org/papers/2dc012ed16ca93ac2f265dc6725f1466/status.svg)](https://joss.theoj.org/papers/2dc012ed16ca93ac2f265dc6725f1466)

Author instructions

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

@JiangmeiRubyXiong 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.

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[editorialbot]

Hello human, I'm @editorialbot, a robot that can help you with some common editorial tasks.

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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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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.03 s (1577.3 files/s, 254582.6 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
R                               30            524           1164           2131
C++                              5            252            360           1379
Markdown                         2             80              0            369
TeX                              1              0              0             65
C/C++ Header                     1             19             67             22
YAML                             1              1              4             19
-------------------------------------------------------------------------------
SUM:                            40            876           1595           3985
-------------------------------------------------------------------------------

Commit count by author:

   112  Joey Sherrill
    26  Sarah Lotspeich
     6  JiangmeiRubyXiong
     5  Sarah
     3  Ran Tao
     3  Sarah Lotspeich (She/Her)
     2  Ruby XIONG
     2  dragontaoran
     1  Shawn Garbett

[editorialbot]

Paper file info:

📄 Wordcount for paper.md is 2157

✅ The paper includes a Statement of need section

[editorialbot]

License info:

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

[editorialbot]

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

✅ OK DOIs

- None

🟡 SKIP DOIs

- No DOI given, and none found for title: An empirical study for impacts of measurement erro...
- No DOI given, and none found for title: Efficient odds ratio estimation under two-phase sa...
- No DOI given, and none found for title: Spline functions: basic theory
- No DOI given, and none found for title: On profile likelihood

❌ MISSING DOIs

- 10.1002/sim.8799 may be a valid DOI for title: Efficient semiparametric inference for two-phase s...
- 10.1080/01621459.2017.1295864 may be a valid DOI for title: Efficient semiparametric inference under two-phase...
- 10.1214/20-aoas1343 may be a valid DOI for title: Accounting for dependent errors in predictors and ...

❌ INVALID DOIs

- None

[editorialbot]

:warning: An error happened when generating the pdf. Author (Jiangmei Xiong) is missing affiliation.

[JiangmeiRubyXiong]

@editorialbot generate pdf

[editorialbot]

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

[editorialbot]

Five most similar historical JOSS papers:

enetLTS: Robust and Sparse Methods for High Dimensional Linear, Binary, and Multinomial Regression Submitting author: @fskurnaz Handling editor: @fabian-s (Active) Reviewers: @mcavs, @marastadler Similarity score: 0.6579

robustHD: An R package for robust regression with high-dimensional data Submitting author: @aalfons Handling editor: @mikldk (Retired) Reviewers: @valentint, @msalibian Similarity score: 0.6548

RBF: An R package to compute a robust backfitting estimator for additive models Submitting author: @alemermartinez Handling editor: @mikldk (Retired) Reviewers: @mcavs, @mmrabe Similarity score: 0.6487

serp: An R package for smoothing in ordinal regression Submitting author: @ejikeugba Handling editor: @Bisaloo (Retired) Reviewers: @bernardsilenou, @wesleyburr Similarity score: 0.6439

cvCovEst: Cross-validated covariance matrix estimator selection and evaluation in R Submitting author: @PhilBoileau Handling editor: @fboehm (Active) Reviewers: @Marie-PerrotDockes, @yunanwu123 Similarity score: 0.6391

⚠️ 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.

[JiangmeiRubyXiong]

⚠️ An error happened when generating the pdf. Author (Jiangmei Xiong) is missing affiliation.

Affiliation updated and issue resolved.

[JiangmeiRubyXiong]

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

✅ OK DOIs

- None

🟡 SKIP DOIs

- No DOI given, and none found for title: An empirical study for impacts of measurement erro...
- No DOI given, and none found for title: Efficient odds ratio estimation under two-phase sa...
- No DOI given, and none found for title: Spline functions: basic theory
- No DOI given, and none found for title: On profile likelihood

❌ MISSING DOIs

- 10.1002/sim.8799 may be a valid DOI for title: Efficient semiparametric inference for two-phase s...
- 10.1080/01621459.2017.1295864 may be a valid DOI for title: Efficient semiparametric inference under two-phase...
- 10.1214/20-aoas1343 may be a valid DOI for title: Accounting for dependent errors in predictors and ...

❌ INVALID DOIs

- None

DOIs are now added to the paper.bib

[crvernon]

@editorialbot generate pdf

[editorialbot]

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

[editorialbot]

Five most similar historical JOSS papers:

enetLTS: Robust and Sparse Methods for High Dimensional Linear, Binary, and Multinomial Regression Submitting author: @fskurnaz Handling editor: @fabian-s (Active) Reviewers: @mcavs, @marastadler Similarity score: 0.6579

robustHD: An R package for robust regression with high-dimensional data Submitting author: @aalfons Handling editor: @mikldk (Retired) Reviewers: @valentint, @msalibian Similarity score: 0.6549

RBF: An R package to compute a robust backfitting estimator for additive models Submitting author: @alemermartinez Handling editor: @mikldk (Retired) Reviewers: @mcavs, @mmrabe Similarity score: 0.6487

serp: An R package for smoothing in ordinal regression Submitting author: @ejikeugba Handling editor: @Bisaloo (Retired) Reviewers: @bernardsilenou, @wesleyburr Similarity score: 0.6442

cvCovEst: Cross-validated covariance matrix estimator selection and evaluation in R Submitting author: @PhilBoileau Handling editor: @fboehm (Active) Reviewers: @Marie-PerrotDockes, @yunanwu123 Similarity score: 0.6389

⚠️ 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.

[crvernon]

@editorialbot invite @jbytecode as editor

:wave: @jbytecode can you take on this submission as editor?

[editorialbot]

Invitation to edit this submission sent!

[jbytecode]

@editorialbot set me as editor

@crvernon - sure, gladly. thank you for inviting me!

[editorialbot]

I'm sorry human, I don't understand that. You can see what commands I support by typing:

@editorialbot commands

[jbytecode]

@editorialbot assign me as editor

[editorialbot]

Assigned! @jbytecode is now the editor

[jbytecode]

@JiangmeiRubyXiong - Hi, thank you for submitting your manuscript and software to JOSS. I am the handling editor of this submission.

While I study your work and try to find a list of suitable reviewers, please take a look at the issue below:

In the manuscript the citations (@tao2021efficient; @lotspeich2022efficient) look a little bit awkward. Could you please read the documentations

• https://joss.readthedocs.io/en/latest/paper.html#citations
• https://pandoc.org/MANUAL#extension-citations

and correct the citation style of your citations in your paper?

Thank you in advance.

[jbytecode]

@JiangmeiRubyXiong - The other missing thing in the manuscript is the DOIs handles of the authors. Please add the ORCIDs in the metadata of the manuscript markdown. When you are done with the task, please ping me. Thank you in advance.

[JiangmeiRubyXiong]

@jbytecode All citations and author DOIs are now updated! Please let me know if there is anything else I can help.

[jbytecode]

@editorialbot generate pdf

[editorialbot]

:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:

[editorialbot]

Five most similar historical JOSS papers:

enetLTS: Robust and Sparse Methods for High Dimensional Linear, Binary, and Multinomial Regression Submitting author: @fskurnaz Handling editor: @fabian-s (Active) Reviewers: @mcavs, @marastadler Similarity score: 0.6694

RBF: An R package to compute a robust backfitting estimator for additive models Submitting author: @alemermartinez Handling editor: @mikldk (Retired) Reviewers: @mcavs, @mmrabe Similarity score: 0.6638

robustHD: An R package for robust regression with high-dimensional data Submitting author: @aalfons Handling editor: @mikldk (Retired) Reviewers: @valentint, @msalibian Similarity score: 0.6637

serp: An R package for smoothing in ordinal regression Submitting author: @ejikeugba Handling editor: @Bisaloo (Retired) Reviewers: @bernardsilenou, @wesleyburr Similarity score: 0.6549

wbacon: Weighted BACON algorithms for multivariate outlier nomination (detection) and robust linear regression Submitting author: @tobiasschoch Handling editor: @fboehm (Active) Reviewers: @msalibian, @aalfons Similarity score: 0.6519

⚠️ 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.

[jbytecode]

👋👋👋 Dear @alemermartinez , @aalfons 👋👋👋

Would you be willing to assist in reviewing this submission for JOSS (Journal of Open Source Software)?

JOSS publishes articles about open source research software. The submission I'd like you to review is titled:

sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables

You can find more information at the top of this Github issue (#7297).

The review process at JOSS is unique: it takes place in a GitHub issue, is open, and author-reviewer-editor conversations are encouraged. If you have any questions please let me know.

This is the pre-review issue. After setting at least 2 reviewers we will start the review process in a separate thread. In that thread, there will be about 25 check items for each single reviewer.

Thank you in advance!

[jbytecode]

👋👋👋 Dear @ejikeugba , @tobiasschoch 👋👋👋

Would you be willing to assist in reviewing this submission for JOSS (Journal of Open Source Software)?

JOSS publishes articles about open source research software. The submission I'd like you to review is titled:

sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables

You can find more information at the top of this Github issue (#7297).

The review process at JOSS is unique: it takes place in a GitHub issue, is open, and author-reviewer-editor conversations are encouraged. If you have any questions please let me know.

This is the pre-review issue. After setting at least 2 reviewers we will start the review process in a separate thread. In that thread, there will be about 25 check items for each single reviewer.

Thank you in advance!

[alemermartinez]

I agree to review this submission.

---

De: Mehmet Hakan Satman @.> Enviado: martes, 1 de octubre de 2024 13:46 Para: openjournals/joss-reviews @.> Cc: Alejandra Martinez @.>; Mention @.> Asunto: Re: [openjournals/joss-reviews] [PRE REVIEW]: sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables (Issue #7297)

👋👋👋 Dear @alemermartinezhttps://github.com/alemermartinez , @aalfonshttps://github.com/aalfons 👋👋👋

Would you be willing to assist in reviewing this submission for JOSS (Journal of Open Source Software)?

JOSS publishes articles about open source research software. The submission I'd like you to review is titled:

sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variableshttps://github.com/openjournals/joss-reviews/issues/7297#top

You can find more information at the top of this Github issue (#7297https://github.com/openjournals/joss-reviews/issues/7297#top).

The review process at JOSS is unique: it takes place in a GitHub issue, is open, and author-reviewer-editor conversations are encouraged. If you have any questions please let me know.

This is the pre-review issue. After setting at least 2 reviewers we will start the review process in a separate thread. In that thread, there will be about 25 check items for each single reviewer.

Thank you in advance!

— Reply to this email directly, view it on GitHubhttps://github.com/openjournals/joss-reviews/issues/7297#issuecomment-2386497398, or unsubscribehttps://github.com/notifications/unsubscribe-auth/AJD27GALK7TZAFFGE4ZZ6CTZZLGV5AVCNFSM6AAAAABO7GRB66VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDGOBWGQ4TOMZZHA. You are receiving this because you were mentioned.Message ID: @.***>

[jbytecode]

@editorialbot add @alemermartinez as reviewer

[editorialbot]

@alemermartinez added to the reviewers list!

[tobiasschoch]

Dear Mehmet,

I won't be able to do the review until the beginning of next year.

We are in the process of introducing a new curriculum at my university. I'm co-lead for the re-organization of all statistics courses, which takes up a lot of time, so I've suspended all research-related activities, unfortunately.

Kind regards, Tobias

Am Do., 3. Okt. 2024 um 07:08 Uhr schrieb Mehmet Hakan Satman < @.***>:

👋👋👋 Dear @ejikeugba https://github.com/ejikeugba , @tobiasschoch https://github.com/tobiasschoch 👋👋👋

Would you be willing to assist in reviewing this submission for JOSS (Journal of Open Source Software)?

JOSS publishes articles about open source research software. The submission I'd like you to review is titled:

sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables https://github.com/openjournals/joss-reviews/issues/7297#top

You can find more information at the top of this Github issue (#7297 https://github.com/openjournals/joss-reviews/issues/7297#top).

The review process at JOSS is unique: it takes place in a GitHub issue, is open, and author-reviewer-editor conversations are encouraged. If you have any questions please let me know.

This is the pre-review issue. After setting at least 2 reviewers we will start the review process in a separate thread. In that thread, there will be about 25 check items for each single reviewer.

Thank you in advance!

— Reply to this email directly, view it on GitHub https://github.com/openjournals/joss-reviews/issues/7297#issuecomment-2390527623, or unsubscribe https://github.com/notifications/unsubscribe-auth/AIRWJDGTB3QXFDY4AT2CPOTZZTGL7AVCNFSM6AAAAABO7GRB66VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDGOJQGUZDONRSGM . You are receiving this because you were mentioned.Message ID: @.***>

-- Tobias Schoch Viktoriastrasse 41 CH-3013 Bern Switzerland Mobile: +41 (0)79 746 13 84 E-Mail: @. @.>

[jbytecode]

👋👋👋 Dear @msalibian 👋👋👋

Would you be willing to assist in reviewing this submission for JOSS (Journal of Open Source Software)?

JOSS publishes articles about open source research software. The submission I'd like you to review is titled:

sleev: An R Package for Semiparametric Likelihood Estimation with Errors in Variables

You can find more information at the top of this Github issue (#7297).

The review process at JOSS is unique: it takes place in a GitHub issue, is open, and author-reviewer-editor conversations are encouraged. If you have any questions please let me know.

This is the pre-review issue. After setting at least 2 reviewers we will start the review process in a separate thread. In that thread, there will be about 25 check items for each single reviewer.

Thank you in advance!

[aalfons]

@jbytecode, sorry for the late response. By when would the review need to be done? I currently have a lot of other reviews on my plate, so I need the timeline to see if it is feasible for me. Thanks!

[jbytecode]

@aalfons - We generally ask our reviewers to finalize their reports within 4-6 weeks and I can give you extra time when it's required. Is this range suitable to you?

[aalfons]

@jbytecode, given my current workload, I expect that I'd need more like 8-10 weeks to get to it. If that is ok, then I can accept the invitation. If you want to keep looking a bit longer to see if you can find someone who can do it sooner, that is also fine by me.

[jbytecode]

@editorialbot add @aalfons as reviewer

[editorialbot]

@aalfons added to the reviewers list!

[jbytecode]

@editorialbot start review

[editorialbot]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/7320.

[jbytecode]

The review starts at https://github.com/openjournals/joss-reviews/issues/7320, see you there.

[msalibian]

Dear @jbytecode,

I'm sorry I won't be able to help with this one. I'm over committed already, and don't expect it to get any better until January (when at least I end my term as Interim Dept Head!)

Sorry about this.

Matias

[jbytecode]

@msalibian - Hope to work in future works then. Thank you for the response.