[PRE REVIEW]: Step-mothur: Nextflow-Based Quality Control and Filtering Pipeline for Highly Multiplexed Amplicon Sequencing Data

[editorialbot]

Submitting author: !--author-handle-->@jinfinance<!--end-author-handle-- (Rong Jin) Repository: https://github.com/ncezid-biome/HMAS-QC-Pipeline2 Branch with paper.md (empty if default branch): sample_base Version: v1.1.0 Editor: Pending Reviewers: Pending Managing EiC: Kevin M. Moerman

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[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.02 s (620.4 files/s, 39754.2 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                           6            114            139            233
Markdown                         2             43              0            121
TeX                              1              7              0             69
YAML                             2              2              4             36
SVG                              1              0              0              1
-------------------------------------------------------------------------------
SUM:                            12            166            143            460
-------------------------------------------------------------------------------

Commit count by author:

    48  Jin
     2  Rong Jin
     1  Andrew Huang

[editorialbot]

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

OK DOIs

- 10.1038/nbt.3820 is OK
- 10.1128/AEM.01541-09 is OK
- 10.1038/s41587-019-0209-9 is OK
- 10.1101/081257 is OK
- 10.7717/peerj.2584 is OK
- 10.14806/ej.17.1.200 is OK
- 10.1093/bioinformatics/btt593 is OK

MISSING DOIs

- None

INVALID DOIs

- None

[editorialbot]

Paper file info:

📄 Wordcount for paper.md is 988

✅ The paper includes a Statement of need section

[editorialbot]

License info:

✅ License found: MIT License (Valid open source OSI approved license)

[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 set main as branch

[editorialbot]

Done! branch is now main

[Kevin-Mattheus-Moerman]

@editorialbot check repository

[Kevin-Mattheus-Moerman]

@editorialbot set dev as branch

[editorialbot]

Done! branch is now dev

[Kevin-Mattheus-Moerman]

@editorialbot check repository

[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.03 s (568.0 files/s, 52556.2 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                          10            302            433            608
Markdown                         2             37              0             92
YAML                             2              2              4             33
INI                              1              9             32             19
SVG                              2              0              0              2
-------------------------------------------------------------------------------
SUM:                            17            350            469            754
-------------------------------------------------------------------------------

Commit count by author:

    44  Jin
     3  Rong Jin
     1  Andrew Huang

[editorialbot]

Paper file info:

⚠️ Failed to find a paper file in https://github.com/ncezid-biome/HMAS-QC-Pipeline2 (branch: dev)

[editorialbot]

License info:

✅ License found: MIT License (Valid open source OSI approved license)

[Kevin-Mattheus-Moerman]

@editorialbot set sample_base as branch

[editorialbot]

Done! branch is now sample_base

[Kevin-Mattheus-Moerman]

@editorialbot check repository

[editorialbot]

Software report:

github.com/AlDanial/cloc v 1.90  T=0.02 s (652.7 files/s, 62614.3 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
Python                          10            292            422            592
Markdown                         2             37              0             92
YAML                             2              2              4             33
INI                              1              9             32             19
SVG                              1              0              0              1
-------------------------------------------------------------------------------
SUM:                            16            340            458            737
-------------------------------------------------------------------------------

Commit count by author:

    42  Jin
     3  Rong Jin
     1  Andrew Huang

[editorialbot]

Paper file info:

⚠️ Failed to find a paper file in https://github.com/ncezid-biome/HMAS-QC-Pipeline2 (branch: sample_base)

[editorialbot]

License info:

✅ License found: MIT License (Valid open source OSI approved license)

[Kevin-Mattheus-Moerman]

@jinfinance thanks for this submission. Unfortunately, given the small size and limited functionality offered, this submission does not conform to our substantial scholarly effort criteria. Hence we will now proceed to reject this submission.

Note that this conclusion does not mean the work is not useful or of a poor quality, it merely means it is not in scope given the small size.

We do hope you'll consider JOSS for any future (re)submissions of a more substantial magnitude.

[Kevin-Mattheus-Moerman]

@editorialbot reject

[editorialbot]

Paper rejected.