bioc-issue-bot
commented
1 month ago Hi @tram-nguyen-n
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: ProteinGymR
Title: Programmatic access to ProteinGym datasets in R/Bioconductor
Version: 0.99.0
Authors@R:
c(person("Tram", "Nguyen",
role = c("aut", "cre"),
email = "Tram_Nguyen@hms.harvard.edu",
comment = c(ORCID = "0000-0003-4809-6227")),
person("Pascal", "Notin",
role = "aut"),
person("Aaron", "Kollasch",
role = "aut"),
person("Ludwig", "Geistlinger",
role = "aut"))
Description: The ProteinGymR package provides analysis-ready data resources from
ProteinGym, generated by Notin et al., 2023. ProteinGym comprises a
collection of benchmarks for evaluating the performance of models
predicting the effect of point mutations. This package provides access to
1. Deep mutational scanning (DMS) scores from 216 assays measuring the
impact of all possible amino acid substitutions across 186 proteins, 2.
AlphaMissense pathogenicity scores for ~1.6 M substitutions in the
ProteinGym DMS data, and 3. five performance metrics for 62 variant
prediction models in a zero-shot setting.
License: Artistic-2.0
URL: https://github.com/ccb-hms/ProteinGymR
BugReports: https://github.com/ccb-hms/ProteinGymR/issues
Depends:
R (>= 4.4.1)
Imports:
AnnotationHub,
ExperimentHub,
dplyr,
forcats,
ggdist,
gghalves,
ggplot2,
purrr,
queryup,
spdl,
tidyr,
tibble
Suggests:
BiocStyle,
knitr,
testthat (>= 3.0.0)
VignetteBuilder:
knitr
Encoding: UTF-8
biocViews: ExperimentData, ExperimentHub, PackageTypeData, Homo_sapiens_Data,
ReproducibleResearch, CellCulture, SequencingData
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Config/testthat/edition: 3
lshep
tram-nguyen-n
hpages
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