bioc-issue-bot
commented
8 months ago Hi @mtmorgan
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: AlphaMissense
Title: Accessing AlphaMissense Resources in R
Version: 0.99.0
Authors@R:
c(person(
"Martin", "Morgan", role = c("aut", "cre"),
email = "mtmorgan.bioc@gmail.com",
comment = c(ORCID = "0000-0002-5874-8148")
), person(
"Chan Zuckerberg Initiative DAF CZF2019-002443",
role = "fnd"
), person(
"NIH NCI ITCR U24CA180996",
role = "fnd"
))
Description:
The AlphaMissense publication
<https://www.science.org/doi/epdf/10.1126/science.adg7492>
outlines how a variant of AlphaFold / DeepMind was used to predict
missense variant pathogenicity. Supporting data on Zenodo
<https://zenodo.org/record/8360242> include, for instance, 71M
variants across hg19 and hg38 genome builds. The 'AlphaMissense'
package allows ready access to the data, downloading individual
files to DuckDB databases for exploration and integration into *R*
and *Bioconductor* workflows.
License: Artistic-2.0
URL: https://mtmorgan.github.io/AlphaMissense/
BugReports: https://github.com/mtmorgan/AlphaMissense/issues
Depends:
dplyr
Imports:
rjsoncons, jsonlite, DBI, duckdb, rlang,
curl, BiocFileCache, spdl, memoise, utils,
whisker
Suggests:
BiocManager,
BiocGenerics,
GenomicRanges,
GenomeInfoDb,
AnnotationHub,
ensembldb,
methods,
tidyr,
knitr,
rmarkdown,
testthat (>= 3.0.0)
biocViews: SNP, Annotation, FunctionalGenomics, StructuralPrediction,
Transcriptomics, VariantAnnotation
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
VignetteBuilder: knitr
Config/testthat/edition: 3
mtmorgan
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