cran-comments.md

In Snitkin-Lab-Umich/prewas: Data Pre-Processing for Bacterial Genome-Wide Association Studies

Resubmission

• Placed package names and software names in single quotes in DESCRIPTION
• Updated CITATION with current journal article information
• Explained that the word 'SnpEff' in the descriptoin text is not an acronym, but the name of a piece of software

Package update

Prewas was archived from CRAN on 2020-07-05 because a dependency, vcfR, was archived on CRAN. Since then vcfR has been updated on CRAN and so prewas will now be able to install successfully.

I tested the package on: mac, R 3.6.2 mac, R 4.0.2 * win, R dev

Check results for mac:

No errors, warnings, or notes.

Check results for win:

0 ERROR | 0 WARNING | 1 NOTE

NOTE:

Possibly mis-spelled words in DESCRIPTION:
    Cingolani (29:66)
    Pre (3:13)
    Saund (27:71)
    SnpEff (29:46)
    al (28:5, 30:5)
    bGWAS (20:59, 23:23, 27:15, 27:36)
    et (27:77, 29:76)
    multiallelic (25:5)
    pre (19:30, 24:26)
    prewas (20:67, 24:5, 26:34, 28:57)

The NOTE is spurious because these words are all correctly spelled technical terms (bGWAS, multiallelic), Latin (et al), software (SnpEff, prewas), or last names (Cingolani, Saund).

Snitkin-Lab-Umich/prewas documentation built on April 23, 2023, 8:22 p.m.