bioc-issue-bot
commented
4 months ago Hi @barizona
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: muleaData
Title: Genes Sets for Functional Enrichment Analysis with the 'mulea' R Package
Version: 0.99.0
Date: 2023-11-20
Authors@R: c(
person("Eszter", "Ari", email = "arieszter@gmail.com", role = c("aut", "cre"),
comment = c(ORCID = "0000-0001-7774-1067")),
person("Márton", "Ölbei", role = c("aut"),
comment = c(ORCID = "0000-0002-4903-6237")),
person("Lejla", "Gul", role = c("aut")),
person("Balázs", "Bohár", role = c("aut"),
comment = c(ORCID = "0000-0002-3033-5448")))
Description: ExperimentHubData package for the 'mulea' comprehensive overrepresentation and functional enrichment analyser R package. Here we provide ontologies (gene sets) in a data.frame for 27 different organisms, ranging from Escherichia coli to human, all acquired from publicly available data sources. Each ontology is provided with multiple gene and protein identifiers.
License: MIT + file LICENSE
URL: https://github.com/ELTEbioinformatics/muleaData
BugReports: https://support.bioconductor.org/tag/muleaData
biocViews: ExperimentData, ExperimentHub, Arabidopsis_thaliana_Data, Bacillus_subtilis_Data, Caenorhabditis_elegans_Data, Danio_rerio_Data, Drosophila_melanogaster_Data, Escherichia_coli_Data, Homo_sapiens_Data, Pan_troglodytes_Data, Pseudomonas_aeruginosa_Data, Rattus_norvegicus_Data, Saccharomyces_cerevisiae_Data, Staphylococcus_aureus_Data, ChIPSeqData, DNASeqData, ExpressionData, miRNAData
BiocType: ExperimentData
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Suggests:
knitr,
rmarkdown
VignetteBuilder: knitr
lshep
barizona
Dear BioC Team,
Here we provide the
muleaDataExperimentHubData Bioconductor package for themulea(ELTEbioinformatics/mulea on github) R package.muleais a comprehensive overrepresentation and functional enrichment analyser R package which reads ontologies (gene and protein sets) in a standardised GMT (Gene Matrix Transposed) format. We provide these GMT files for 27 different model organisms, ranging from Escherichia coli to human, all acquired from publicly available data sources. The GMT files are provided with multiple gene and protein identifiers such as UniProt protein IDs, Entrez, Gene Symbol, and Ensembl gene IDs. The GMT files and the scripts we applied to create them are available at the _GMT_files_formulea (ELTEbioinformatics/GMT_files_for_mulea on github) repository. For themuleaDatawe read these GMT files with themulea::read_gmt()function and saved it to .rds files with the standard RsaveRDS()function. I've got the SAS token from Lori Shepard and uploaded the .rds files to the Azure Data Lake. She wrote that the data is now added:Best wishes, Eszter Ari
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