bioc-issue-bot
commented
1 year ago Hi @almeidasilvaf
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: tfhunter
Title: Identification and classification of plant transcription factors
Version: 0.99.0
Date: 2022-03-10
Authors@R:
c(
person(given = "Fabrício",
family = "Almeida-Silva",
role = c("aut", "cre"),
email = "fabricio_almeidasilva@hotmail.com",
comment = c(ORCID = "0000-0002-5314-2964")),
person(given = "Yves",
family = "Van de Peer",
role = "aut",
email = "yves.vandepeer@psb.vib-ugent.be",
comment = c(ORCID = "0000-0003-4327-3730"))
)
Description: tfhunter is used to identify plant transcription factors (TFs)
from protein sequence data and classify them into families and subfamilies
using the classification scheme implemented in PlantTFDB.
TFs are identified using pre-built hidden Markov model profiles
for DNA-binding domains. Then, auxiliary and forbidden domains are
used with DNA-binding domains to classify TFs into families and
subfamilies (when applicable). Currently, TFs can be classified in
58 different TF families/subfamilies.
License: GPL-3
URL: https://github.com/almeidasilvaf/tfhunter
BugReports: https://support.bioconductor.org/t/tfhunter
biocViews: Software,
Transcription,
FunctionalPrediction,
GenomeAnnotation,
FunctionalGenomics,
HiddenMarkovModel,
Sequencing,
Classification
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.0
SystemRequirements: HMMER <http://hmmer.org/>
Imports:
Biostrings,
SummarizedExperiment,
utils,
methods
Suggests:
BiocStyle,
covr,
sessioninfo,
knitr,
rmarkdown,
testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
Depends:
R (>= 4.2.0)
LazyData: false
vjcitn
almeidasilvaf
Update the following URL to point to the GitHub repository of the package you wish to submit to Bioconductor
Confirm the following by editing each check box to '[x]'
[x] I understand that by submitting my package to Bioconductor, the package source and all review commentary are visible to the general public.
[x] I have read the Bioconductor Package Submission instructions. My package is consistent with the Bioconductor Package Guidelines.
[x] I understand Bioconductor Package Naming Policy and acknowledge Bioconductor may retain use of package name.
[x] I understand that a minimum requirement for package acceptance is to pass R CMD check and R CMD BiocCheck with no ERROR or WARNINGS. Passing these checks does not result in automatic acceptance. The package will then undergo a formal review and recommendations for acceptance regarding other Bioconductor standards will be addressed.
[x] My package addresses statistical or bioinformatic issues related to the analysis and comprehension of high throughput genomic data.
[x] I am committed to the long-term maintenance of my package. This includes monitoring the support site for issues that users may have, subscribing to the bioc-devel mailing list to stay aware of developments in the Bioconductor community, responding promptly to requests for updates from the Core team in response to changes in R or underlying software.
[x] I am familiar with the Bioconductor code of conduct and agree to abide by it.
I am familiar with the essential aspects of Bioconductor software management, including:
For questions/help about the submission process, including questions about the output of the automatic reports generated by the SPB (Single Package Builder), please use the #package-submission channel of our Community Slack. Follow the link on the home page of the Bioconductor website to sign up.