Open editorialbot opened 2 weeks ago
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Software report:
github.com/AlDanial/cloc v 1.90 T=0.01 s (345.6 files/s, 62208.2 lines/s)
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Language files blank comment code
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Markdown 2 76 0 294
TeX 1 0 0 272
YAML 1 2 1 75
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SUM: 4 78 1 641
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Commit count by author:
41 Jacques Dainat
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
β
OK DOIs
- 10.1093/BIOINFORMATICS/BTP324 is OK
- 10.1093/BIOINFORMATICS/BTP698 is OK
- 10.1038/NMETH.1923 is OK
- 10.1093/NAR/GKT214 is OK
- 10.1093/bioinformatics/bts635 is OK
- 10.1371/journal.pone.0163962 is OK
- 10.1093/bioinformatics/btw354 is OK
- 10.1038/nmeth.4197 is OK
- 10.1038/nbt.3820 is OK
- 10.1371/JOURNAL.PCBI.1005944 is OK
- 10.1038/s41592-018-0001-7 is OK
- 10.1101/720458 is OK
- 10.1093/BIOINFORMATICS/BTAB705 is OK
- 10.1093/gigascience/giab008 is OK
- 10.1002/imt2.107 is OK
π‘ SKIP DOIs
- No DOI given, and none found for title: novoAlign | Novocraft
- No DOI given, and none found for title: BBMap
- No DOI given, and none found for title: Aligning sequence reads, clone sequences and assem...
- No DOI given, and none found for title: FastQC
- No DOI given, and none found for title: A Recent ( 2020 ) Comparative Analysis of Genome A...
β MISSING DOIs
- None
β INVALID DOIs
- 10.1186/GB-2013-14-4-R36/FIGURES/6 is INVALID
Paper file info:
π Wordcount for paper.md
is 712
π΄ Failed to discover a Statement of need
section in paper
License info:
β
License found: MIT License
(Valid open source OSI approved license)
:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:
Five most similar historical JOSS papers:
sam2lca: Lowest Common Ancestor for SAM/BAM/CRAM alignment files
Submitting author: @maxibor
Handling editor: @jmschrei (Active)
Reviewers: @fasnicar, @marouenbg
Similarity score: 0.7372
RNAsik: A Pipeline for complete and reproducible RNA-seq analysis that runs anywhere with speed and ease
Submitting author: @serine
Handling editor: @pjotrp (Retired)
Reviewers: @andrewyatz
Similarity score: 0.7187
reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome
Submitting author: @nterhoeven
Handling editor: @mgymrek (Retired)
Reviewers: @jsgalan
Similarity score: 0.7062
ALPPACA - A tooL for Prokaryotic Phylogeny And Clustering Analysis
Submitting author: @hkaspersen
Handling editor: @csoneson (Active)
Reviewers: @mberacochea, @hseabolt, @rcannood
Similarity score: 0.7055
A reproducible Snakemake pipeline to analyse Illumina paired-end data from ChiP-Seq experiments
Submitting author: @mgalland
Handling editor: @brainstorm (Retired)
Reviewers: @vladsaveliev
Similarity score: 0.6999
β οΈ 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.
@Juke34 Dear author, thanks for this submission. I am the AEiC on this track and here to help process the initial steps. Before we proceed, please can you have a look at the following points:
.bib
file, and call @editorialbot check references
here to check them again. CONTRIBUTING.md
file (see here for some examples: https://contributing.md/example/).cloc
does not count lines of nextflow code, could you help provide a summary of the number of lines of code contained in this submission (that are fully your own work). Thanks! Statement of Need
section is needed. You can call @editorialbot generate pdf
here to update the paper. @editorialbot check reference
I'm sorry human, I don't understand that. You can see what commands I support by typing:
@editorialbot commands
@editorialbot check references
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
β
OK DOIs
- 10.1093/BIOINFORMATICS/BTP324 is OK
- 10.1093/BIOINFORMATICS/BTP698 is OK
- 10.1038/NMETH.1923 is OK
- 10.1093/NAR/GKT214 is OK
- 10.1186/GB-2013-14-4-R36 is OK
- 10.1093/bioinformatics/bts635 is OK
- 10.1371/journal.pone.0163962 is OK
- 10.1093/bioinformatics/btw354 is OK
- 10.1038/nmeth.4197 is OK
- 10.1038/nbt.3820 is OK
- 10.1371/JOURNAL.PCBI.1005944 is OK
- 10.1038/s41592-018-0001-7 is OK
- 10.1101/720458 is OK
- 10.1093/BIOINFORMATICS/BTAB705 is OK
- 10.1093/gigascience/giab008 is OK
- 10.1002/imt2.107 is OK
π‘ SKIP DOIs
- No DOI given, and none found for title: novoAlign | Novocraft
- No DOI given, and none found for title: BBMap
- No DOI given, and none found for title: Aligning sequence reads, clone sequences and assem...
- No DOI given, and none found for title: FastQC
- No DOI given, and none found for title: A Recent ( 2020 ) Comparative Analysis of Genome A...
β MISSING DOIs
- None
β INVALID DOIs
- None
@editorialbot check references
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):
β
OK DOIs
- 10.1093/BIOINFORMATICS/BTP324 is OK
- 10.1093/BIOINFORMATICS/BTP698 is OK
- 10.1038/NMETH.1923 is OK
- 10.1093/NAR/GKT214 is OK
- 10.1186/GB-2013-14-4-R36 is OK
- 10.1093/bioinformatics/bts635 is OK
- 10.1371/journal.pone.0163962 is OK
- 10.1093/bioinformatics/btw354 is OK
- 10.1038/nmeth.4197 is OK
- 10.1038/nbt.3820 is OK
- 10.1371/JOURNAL.PCBI.1005944 is OK
- 10.1038/s41592-018-0001-7 is OK
- 10.1101/720458 is OK
- 10.1038/s41587-019-0201-4 is OK
- 10.1093/BIOINFORMATICS/BTAB705 is OK
- 10.1093/gigascience/giab008 is OK
- 10.1002/imt2.107 is OK
π‘ SKIP DOIs
- No DOI given, and none found for title: novoAlign | Novocraft
- No DOI given, and none found for title: BBMap
- No DOI given, and none found for title: Aligning sequence reads, clone sequences and assem...
- No DOI given, and none found for title: FastQC
β MISSING DOIs
- None
β INVALID DOIs
- None
@editorialbot generate pdf
:point_right::page_facing_up: Download article proof :page_facing_up: View article proof on GitHub :page_facing_up: :point_left:
Five most similar historical JOSS papers:
sam2lca: Lowest Common Ancestor for SAM/BAM/CRAM alignment files
Submitting author: @maxibor
Handling editor: @jmschrei (Active)
Reviewers: @fasnicar, @marouenbg
Similarity score: 0.7475
RNAsik: A Pipeline for complete and reproducible RNA-seq analysis that runs anywhere with speed and ease
Submitting author: @serine
Handling editor: @pjotrp (Retired)
Reviewers: @andrewyatz
Similarity score: 0.7246
reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome
Submitting author: @nterhoeven
Handling editor: @mgymrek (Retired)
Reviewers: @jsgalan
Similarity score: 0.7173
A reproducible Snakemake pipeline to analyse Illumina paired-end data from ChiP-Seq experiments
Submitting author: @mgalland
Handling editor: @brainstorm (Retired)
Reviewers: @vladsaveliev
Similarity score: 0.7018
ALPPACA - A tooL for Prokaryotic Phylogeny And Clustering Analysis
Submitting author: @hkaspersen
Handling editor: @csoneson (Active)
Reviewers: @mberacochea, @hseabolt, @rcannood
Similarity score: 0.6958
β οΈ 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.
Dear @Kevin-Mattheus-Moerman,
I have addressed all the issues you pointed out.
About the number of lines of code contained in this submission, it should be 3538 lines (counted using wc -l
)
Best regards,
Jacques Dainat
Submitting author: !--author-handle-->@Juke34<!--end-author-handle-- (Jacques Dainat) Repository: https://github.com/Juke34/AliNe Branch with paper.md (empty if default branch): main Version: v1.0.0 Editor: Pending Reviewers: Pending Managing EiC: Kevin M. Moerman
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