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[PRE REVIEW]: ggret: An R package for visualising and manipulating tree‑based phylogenetic networks #7504

Open editorialbot opened 4 hours ago

editorialbot commented 4 hours ago

Submitting author: !--author-handle-->@grdspcht<!--end-author-handle-- (Gerd Specht) Repository: https://github.com/grdspcht/ggret/ Branch with paper.md (empty if default branch): Version: 1.0.0 Editor: Pending Reviewers: Pending Managing EiC: Kevin M. Moerman

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editorialbot commented 4 hours ago

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editorialbot commented 4 hours ago

Software report:

github.com/AlDanial/cloc v 1.90  T=0.02 s (829.5 files/s, 221382.0 lines/s)
-------------------------------------------------------------------------------
Language                     files          blank        comment           code
-------------------------------------------------------------------------------
R                               11            432            828           2133
TeX                              1             52              0            593
Markdown                         2             63              0            198
YAML                             2              7              6             44
Rmd                              1             49             90             42
-------------------------------------------------------------------------------
SUM:                            17            603            924           3010
-------------------------------------------------------------------------------

Commit count by author:

   138  grdspcht
    19  arthurKocher
     6  Clemens Schmid
editorialbot commented 4 hours ago

Paper file info:

📄 Wordcount for paper.md is 1395

✅ The paper includes a Statement of need section

editorialbot commented 4 hours ago

License info:

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

editorialbot commented 4 hours ago

:warning: An error happened when generating the pdf. Problem with ORCID (0000-0003-3448-571) for Clemens Schmid. ORCID looks to be the wrong length.

editorialbot commented 4 hours ago 
Reference check summary (note 'MISSING' DOIs are suggestions that need verification):

✅ OK DOIs

- 10.1201/9781420035025 is OK
- 10.1007/978-3-319-24277-4 is OK
- 10.1111/2041-210X.12628 is OK
- 10.1093/bioinformatics/bty633 is OK
- 10.18129/B9.bioc.tanggle is OK
- 10.1007/0-387-28695-0 is OK
- 10.1093/bioinformatics/btx155 is OK
- 10.1007/978-3-030-68766-3_14 is OK
- 10.1186/s42492-020-00043-z is OK
- 10.1186/1471-2105-9-532 is OK
- 10.1007/978-3-030-68766-3_14 is OK
- 10.7551/mitpress/9432.001.0001 is OK
- 10.1017/CBO9780511974076 is OK
- 10.1093/molbev/msj030 is OK
- 10.1089/cmb.2015.0228 is OK
- 10.1093/molbev/msj030 is OK
- 10.1093/sysbio/syv037 is OK
- 10.1007/11415770_18 is OK
- 10.1093/bioinformatics/btq548 is OK
- 10.1093/bioinformatics/14.1.68 is OK
- 10.1126/science.aao4593 is OK
- 10.1111/j.1469-8137.2004.01253.x is OK
- 10.1126/science.284.5423.2124 is OK
- 10.1016/j.meegid.2014.12.022 is OK
- 10.1038/nrmicro2614 is OK
- 10.1093/acprof:oso/9780199602605.003.0003 is OK
- 10.1038/s41579-021-00650-4 is OK
- 10.1038/s41576-023-00688-5 is OK
- 10.1534/genetics.116.193425 is OK
- 10.1073/pnas.1918304117 is OK
- 10.1038/s41467-022-31749-8 is OK

🟡 SKIP DOIs

- No DOI given, and none found for title: R Graphics, Third Edition
- No DOI given, and none found for title: R Graphics
- No DOI given, and none found for title: R Packages (2e)
- No DOI given, and none found for title: R Packages
- No DOI given, and none found for title: Horizontal gene transfer: a new paradigm for biolo...
- No DOI given, and none found for title: BEAST 2.5: An advanced software platform for Bayes...

❌ MISSING DOIs

- Entry without DOI or title found
- Entry without DOI or title found
- Entry without DOI or title found
- 10.3389/fgene.2013.00206 may be a valid DOI for title: The importance and application of the ancestral re...
- 10.3389/fgene.2013.00146 may be a valid DOI for title: GraphML specializations to codify ancestral recomb...
- 10.1016/j.meegid.2014.12.022 may be a valid DOI for title: Recombination in viruses: mechanisms, methods of s...

❌ INVALID DOIs

- None