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KoinaR - R package to interface with Koina web service #3392

Open LLautenbacher opened 2 months ago

LLautenbacher commented 2 months ago

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bioc-issue-bot commented 2 months ago

Hi @LLautenbacher

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: koinar
Type: Package
Title: koina - Community driven open-source service facilitating access to
  machine learning models for life science research  
Version: 0.99.0
Authors@R: c(person(given = "Ludwig", family = "Lautenbacher",
    email = "ludwig.lautenbacher@tum.de", role = c("aut", "cre"), comment=c(ORCID="0000-0002-1540-5911")),
  person(given = "Christian", family = "Panse", email = "cp@fgcz.ethz.ch", role = c("aut"),
    comment = c(ORCID = "0000-0003-1975-3064")))
Depends:
  R (>= 4.3)
Imports:
  httr,
  jsonlite,
  methods,
  utils
Suggests:
  BiocStyle (>= 2.26),
  knitr,
  protViz,
  lattice,
  testthat
Description: A client to simplify fetching predictions from the Koina web 
  service. Koina is a community driven endeavour to make AI models for life 
  science research more accessible. It is a service that tries to reduce the 
  barrier of entry for using machine learning models in life science research 
  by removing the need to set up and maintain the infrastructure required to 
  run ML models. The project is open-source and adheres to FAIR principles.
  More information can be found at https://koina.wilhelmlab.org/docs. 
License: Apache License 2.0
URL: https://github.com/wilhelm-lab/koina
BugReports: https://github.com/wilhelm-lab/koina/issues
Encoding: UTF-8
NeedsCompilation: no
RoxygenNote: 7.3.1
VignetteBuilder: knitr
biocViews: MassSpectrometry, Proteomics, Infrastructure, Software, ShinyApps
lshep commented 1 month ago

NEWS

General

LLautenbacher commented 1 month ago

HI Ishep, thank you for looking into this. I added an example with OrgMassSpecR. Biostrings is mostly nucleotide sequences and as such not really relevant for our package.

Let me know if I should add anything else!

LLautenbacher commented 1 month ago

Hi @lshep is there something still missing for moving this along?

lshep commented 4 weeks ago

OrgMassSpecR is not a Bioconductor package. Is there any Bioconductor workflows/infrastructure that this can tie into?

lshep commented 2 days ago

Any further comments on this?