[PRE REVIEW]: Staring down direct infusion metabolomics datasets with MeDUSA

[editorialbot]

Submitting author: !--author-handle-->@laura-hetzel<!--end-author-handle-- (Laura Ann Hetzel) Repository: https://github.com/laura-hetzel/MeDUSA Branch with paper.md (empty if default branch): Version: v1.0 Editor: !--editor-->@diazrenata<!--end-editor-- Reviewers: Pending Managing EiC: Kevin M. Moerman

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[editorialbot]

Checking the BibTeX entries failed with the following error:

No paper file path

[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=1.49 s (42.4 files/s, 103731.8 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
CSV                              9              1              0         114453
XML                              6              0              0          34900
R                               40            532           1417           2650
Markdown                         1             18              0             48
TeX                              1              6              0             48
Bourne Shell                     4             11             16             37
Dockerfile                       1              7             14             27
Python                           1              4              2             10
-------------------------------------------------------------------------------
SUM:                            63            579           1449         152173
-------------------------------------------------------------------------------

Commit count by author:

   114  Pascal
    72  NotEric
    26  Laura Hetzel
    14  Eman-Mu
    11  David Rasp
    10  klabla
     8  Merys Valdez
     8  Pascal Maas
     4  Ahmed Ali
     2  Alida Kindt-Dunjko
     1  StatisticsValdez

[editorialbot]

Paper file info:

⚠️ Failed to find a paper file in https://github.com/laura-hetzel/MeDUSA

[editorialbot]

:warning: An error happened when generating the pdf. Paper file not found.

[editorialbot]

License info:

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

[TheFollyLlama]

@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:

[Kevin-Mattheus-Moerman]

@editorialbot check references

[editorialbot]

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

OK DOIs

- 10.1002/anie.201709719 is OK
- 10.1038/nprot.2016.156 is OK
- 10.1021/ac051437y is OK
- 10.1093/nar/gkab382 is OK
- 10.1038/s41598-024-55356-3 is OK

MISSING DOIs

- None

INVALID DOIs

- 10.3109/03014460.2013.807878. is INVALID

[TheFollyLlama]

@editorialbot check references

[editorialbot]

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

OK DOIs

- 10.3109/03014460.2013.807878 is OK
- 10.1002/anie.201709719 is OK
- 10.1038/nprot.2016.156 is OK
- 10.1021/ac051437y is OK
- 10.1093/nar/gkab382 is OK
- 10.1038/s41598-024-55356-3 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[Kevin-Mattheus-Moerman]

@editorialbot invite @zhubonan as editor

[editorialbot]

Invitation to edit this submission sent!

[Kevin-Mattheus-Moerman]

@zhubonan this work may be somewhat outside of your usual domain, but I was wondering if you are familiar with the techniques employed and therefore able to handle it regardless. Thanks anyway.

[zhubonan]

@Kevin-Mattheus-Moerman Sorry, this is a bit far from my domain...

[Kevin-Mattheus-Moerman]

@editorialbot invite @diazrenata as editor

[editorialbot]

Invitation to edit this submission sent!

[diazrenata]

@editorialbot assign me as editor

[editorialbot]

Assigned! @diazrenata is now the editor

[diazrenata]

Hi @laura-hetzel! I'll be editing this submission. Have you had a chance to look at the reviewer application and identify any potential reviewers?

[TheFollyLlama]

Hi @diazrenata. Found a few: https://reviewers.joss.theoj.org/reviewers/search?language=29&area_id=&keywords=mass+spec

[diazrenata]

@editorialbot check repository

[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=1.41 s (44.6 files/s, 107463.2 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
CSV                              9              1              0         114453
XML                              5              0              0          32339
R                               40            527           1451           2652
YAML                             2              3             15             50
Markdown                         1             18              0             48
TeX                              1              6              0             48
Bourne Shell                     4             11             16             37
Dockerfile                       1              6             14             28
-------------------------------------------------------------------------------
SUM:                            63            572           1496         149655
-------------------------------------------------------------------------------

Commit count by author:

   114  Pascal
    83  NotEric
    26  Laura Hetzel
    14  Eman-Mu
    11  David Rasp
    10  klabla
     8  Merys Valdez
     8  Pascal Maas
     4  Ahmed Ali
     2  Alida Kindt-Dunjko
     2  Eric Hetzel
     1  StatisticsValdez

[editorialbot]

Paper file info:

📄 Wordcount for paper.md is 958

✅ The paper includes a Statement of need section

[editorialbot]

License info:

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

[diazrenata]

@laura-hetzel and @TheFollyLlama - on looking over the repo, my first question is about a general description of the software. Usually this information is in the README - e.g. what the software does, how to install it and use it, any dependencies, and examples. Could you add a page like this? It would make it much easier for reviewers and potential users of the software.

Also - is @laura-hetzel or @TheFollyLlama the author for correspondence?

[TheFollyLlama]

hi @diazrenata. I've updated the README. The R requirements are in the R package directory . Easiest way to install and use is via the dockerhub image

The corresponding author is @ahmed-ali9

[laura-hetzel]

Hi @diazrenata can we please get an update on the status of the review? Also, we indicated that @ahmed-ali9 is the corresponding author, but he has not been added to this repository. Thank you!

[ahmed-ali9]

Dear @diazrenata , we would like an update of the status of the manuscript please? Just incase this does not reach you, i have taken the liberty to also send you an email, i hope thats okay!