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NestLink (package type - Experiment Data ) #931

Closed cpanse closed 5 years ago

cpanse commented 5 years ago

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bioc-issue-bot commented 5 years ago

Hi @cpanse

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: NestLink
Type: Package
Title: NestLink an R data package to guide through Engineered Peptide Barcodes for In-Depth Analyses of Binding Protein Ensembles
Authors@R: c(person("Pascal", "Egloff", email = "p.egloff@imm.uzh.ch", role = c("ctb","aut")),
  person("Iwan", "Zimmermann", role = "ctb"), 
  person("Fabian M.", "Arnold", role = "ctb"),
  person("Cedric A.J.", "Hutter", role = "ctb"), 
  person("Damien", "Morger", role = "ctb"), 
  person("Lennart", "Opitz", email = "Lennart.Opitz@fgcz.ethz.ch", role = c("aut", "cre")),
  person("Lucy", "Poveda", role = "ctb"), 
  person("Hans-Anton", "Keserue", role = "ctb"), 
  person("Christian", "Panse", email = "cp@fgcz.ethz.ch", role = c("aut", "cre"),
comment = c(ORCID = "0000-0003-1975-3064")),
  person("Bernd", "Roschitzki", role = c("ctb", "aut")),
  person("Markus", "Seeger", email = "cp@fgcz.ethz.ch", role = c("aut", "ctb"),
comment = c(ORCID = "0000-0003-1761-8571"))
        )
Author: Pascal Egloff [ctb, aut],
  Iwan Zimmermann [ctb],
  Fabian M. Arnold [ctb],
  Cedric A.J. Hutter [ctb],
  Damien Morger [ctb],
  Lennart Opitz [aut, cre],
  Lucy Poveda  [ctb],
  Hans-Anto Keserue  [ctb],
  Christian Panse  [aut, cre] (0000-0003-1975-3064),
  Bernd Roschitzki  [ctb, aut],
  Markus Seeger [ctb, aut] (0000-0003-1761-8571)
Version: 0.99.51
Depends: R (>= 3.5.1),
  Biostrings,
  gplots,
  protViz (>= 0.3.1), 
  ShortRead 
Imports: grDevices, graphics, stats, utils
Maintainer: Christian Panse <cp@fgcz.ethz.ch>, Lennart Opitz <Lennart.Opitz@fgcz.uzh.ch>
Description: Provides next-generation sequencing (NGS) and mass spectrometry (MS) sample
  data, code snippets and replication material used for developing NestLink. 
  The NestLink approach is a protein binder selection and identification technology
  able to biophysically characterize thousands of library members at once without
  handling individual clones at any stage of the process. Data were mainly acquired on
  the NGS and MS platforms at the Functional Genomics Center Zurich core facility.
License: GPL
LazyData: TRUE
VignetteBuilder: knitr
Suggests: BiocStyle (>= 2.2.0), DT, ggplot2, knitr, rmarkdown, shiny, testthat, specL, lattice, scales
NeedsCompilation: no
biocViews: ExperimentData, SequencingData, MassSpectrometryData, ReproducibleResearch
RoxygenNote: 6.1.0
bioc-issue-bot commented 5 years ago

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bioc-issue-bot commented 5 years ago

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bioc-issue-bot commented 5 years ago

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bioc-issue-bot commented 5 years ago

Received a valid push; starting a build. Commits are:

a31a947 re-added LO as maintainer d008e02 Merge branch 'master' of github.com:cpanse/NestLin...

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vobencha commented 5 years ago

@cpanse these data look like a good candidate for ExperimentHub: https://bioconductor.org/packages/release/bioc/vignettes/ExperimentHub/inst/doc/CreateAnExperimentHubPackage.html

The Hub is an alternative to the old style data-experiment (or annotation) package. The data would be stored in AWS S3 and a lightweight software "shell" is stored in git. If you are interested in this route @lshep can help you reorganize the package.

Valerie

cpanse commented 5 years ago

@vobencha excellent idea. @lshep can you please provide me the credentials to upload to AWS S3.

Christian

lshep commented 5 years ago

@cpanse Could you please email me at lori.shepherd@roswellpark.org - I cannot post credentials on a github issue.

vobencha commented 5 years ago

Changing reviewer to @lshep .

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