Joss-reviews: [PRE REVIEW]: tidyHeatmap: an R package for modular heatmap production based on tidy principles

[whedon]

Submitting author: @stemangiola (Stefano Mangiola)
Repository: https://github.com/stemangiola/tidyHeatmap
Version: v1.1.0
Editor: @karthik
Reviewers: @rlbarter, @AliciaSchep
Managing EiC: Kyle Niemeyer

:warning: JOSS reduced service mode :warning:

Due to the challenges of the COVID-19 pandemic, JOSS is currently operating in a "reduced service mode". You can read more about what that means in our blog post.

Author instructions

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

@stemangiola if you have any suggestions for potential reviewers then please mention them here in this thread (without tagging them with an @). In addition, this list of people have already agreed to review for JOSS and may be suitable for this submission (please start at the bottom of the list).

Editor instructions

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

@whedon commands

[whedon]

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

:warning: JOSS reduced service mode :warning:

Due to the challenges of the COVID-19 pandemic, JOSS is currently operating in a "reduced service mode". You can read more about what that means in our blog post.

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

@whedon commands

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

@whedon generate pdf

[whedon]

Failed to discover a Statement of need section in paper

[whedon]

Software report (experimental):

github.com/AlDanial/cloc v 1.84  T=0.13 s (246.8 files/s, 36230.7 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
R                               11            589            968           1969
HTML                             1             33              2            372
Markdown                         3             76              0            270
TeX                              1              3              0             95
Rmd                              3             73            123             93
YAML                             4             16              2             90
SVG                             10              6              1             63
-------------------------------------------------------------------------------
SUM:                            33            796           1096           2952
-------------------------------------------------------------------------------


Statistical information for the repository '2460' was gathered on 2020/07/09.
No commited files with the specified extensions were found.

[whedon]

Failed to discover a valid open source license.

[whedon]

Reference check summary:

OK DOIs

- 10.21105/joss.01686 is OK

MISSING DOIs

- https://doi.org/10.1093/bioinformatics/btw313 may be missing for title: Complex heatmaps reveal patterns and correlations in multidimensional genomic data
- https://doi.org/10.1093/bioinformatics/btu393 may be missing for title: circlize implements and enhances circular visualization in R

INVALID DOIs

- None

[whedon]

:point_right: Check article proof :page_facing_up: :point_left:

[kyleniemeyer]

Hi @stemangiola, thanks for your submission to JOSS. As we are getting started, could you please resolve a few issues?

• Please revise your paper to include an explicit Statement of Need section, as described in our documentation?
• We cannot find an open-source license in your repository.
• Also, it looks like some DOIs may be missing for some references.

Thanks!

[kyleniemeyer]

Hey @karthik, could you edit this one?

[kyleniemeyer]

@whedon invite @karthik as editor

[whedon]

@karthik has been invited to edit this submission.

[stemangiola]

Hi @stemangiola, thanks for your submission to JOSS. As we are getting started, could you please resolve a few issues?

* Please revise your paper to include an explicit Statement of Need section, as described in [our documentation](https://joss.readthedocs.io/en/latest/submitting.html#what-should-my-paper-contain)?

* We cannot find an open-source license in your repository.

* Also, it looks like some DOIs may be missing for some references.

Thanks!

Thanks. Those two issues were resolved. Statement of need coming.

[stemangiola]

Could I/you please invite the other author @ papenfuss to this review?

[stemangiola]

The statement of need has been added to paper.md

[kyleniemeyer]

Hi @stemangiola, the review issues are fully open so anyone can join— @papenfuss, feel free to chime in here/follow this issue!

[kyleniemeyer]

@whedon generate pdf

[whedon]

:point_right: Check article proof :page_facing_up: :point_left:

[karthik]

@whedon assign @karthik as editor

[whedon]

OK, the editor is @karthik

[karthik]

@whedon add @rlbarter as reviewer

[whedon]

OK, @rlbarter is now a reviewer

[karthik]

Hello @AliciaSchep Would you be able to serve as a second reviewer on this submission? 🙏

[AliciaSchep]

Sure!

[karthik]

@Whedon add @AliciaSchep as reviewer

[whedon]

OK, @AliciaSchep is now a reviewer

[karthik]

@Whedon start review

[whedon]

OK, I've started the review over in https://github.com/openjournals/joss-reviews/issues/2472.