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EnrichDO #3468

Open liangcheng-hrbmu opened 6 days ago

liangcheng-hrbmu commented 6 days ago

Update the following URL to point to the GitHub repository of the package you wish to submit to Bioconductor

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bioc-issue-bot commented 6 days ago

Hi @liangcheng-hrbmu

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: EnrichDO
Type: Package
Title: Disease ontology annotation and enrichment analysis
Version: 0.99.0
Author: c(person(given="Haixiu",family="Yang",email="yanghaixiu@ems.hrbmu.edu.cn",role=c("aut")),
person(given="Hongyu",family="Fu",email="15736262010@163.com",role=c("cre"))
)
Maintainer: Liang Cheng <liangcheng@hrbmu.edu.cn>
Description: This package combines topological properties of 
    disease ontology structure to implement disease ontology 
    enrichment analysis.Enrichment analyses including a variety 
    of statistical models and visualization schemes for discovering 
    the disease-gene relationship under biological big data.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: BiocGenerics, RColorBrewer, Rgraphviz, clusterProfiler,
    dplyr, ggplot2, graph, magrittr, methods, pheatmap,
    purrr, readr, stringr, tidyr
biocViews: Annotation, Visualization, 
        GeneSetEnrichment, Software
Depends: 
    R (>= 3.5.0)
RoxygenNote: 7.3.1
Suggests: 
    knitr,
    rmarkdown
VignetteBuilder: knitr
lshep commented 5 days ago

Can you please expand the abstract/introduction in your vignette that provides motivation for inclusion in Bioconductor and when appropriate a review and comparison to existing Bioconductor packages with similar functionality or scope. Is it possible to show interoperability with any existing Bioconductor infrastructure classes?

The data in Meta should be moved to an official recognized directory, either data or inst/extdata and if in inst/extdata there should be an inst/script that describes the data, how it was created, source information, etc.

liangcheng-hrbmu commented 4 days ago

Can you please expand the abstract/introduction in your vignette that provides motivation for inclusion in Bioconductor and when appropriate a review and comparison to existing Bioconductor packages with similar functionality or scope. Is it possible to show interoperability with any existing Bioconductor infrastructure classes?

The data in Meta should be moved to an official recognized directory, either data or inst/extdata and if in inst/extdata there should be an inst/script that describes the data, how it was created, source information, etc.

We have modified the uploaded package according to your suggestion.