Package: orthosData 1.11.0

Panagiotis Papasaikas

orthosData: Data for the orthos package

`orthosData` is the companion ExperimentData package to the `orthos` R package for mechanistic studies using differential gene expression experiments. It provides functions for retrieval from ExperimentHub and local caching of the models and datasets used internally in orthos.

Authors:Panagiotis Papasaikas [aut, cre], Charlotte Soneson [aut], Michael Stadler [aut], Friedrich Miescher Institute for Biomedical Research [cph]

orthosData_1.11.0.tar.gz
orthosData_1.11.0.tar.gz(r-4.7-any)orthosData_1.11.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
orthosData/json (API)

# Install 'orthosData' in R:

install.packages('orthosData', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/fmicompbio/orthosdata/issues

On BioConductor:orthosData-1.11.0(data/experiment 3.24)orthosData-1.10.0(data/experiment 3.23)

experimentdata rnaseqdata experimenthub datapkg

4.48 score 1 packages 1 scripts 2 exports 74 dependencies

Last updated from:3036ade6a1. Checks:2 NOTE, 1 OK, 1 ERROR. Indexed: yes.

This is a data package. Data packages may be large and do not get checked across all platforms.

Target	Result	Time
bioc-checks	NOTE	187
linux-devel	NOTE	1251
source / vignettes	OK	224
linux-release	ERROR	1209

Exports:GetorthosContrastDB GetorthosModels

Dependencies:abind AnnotationDbi AnnotationHub askpass Biobase BiocBaseUtils BiocFileCache BiocGenerics biocmake BiocManager BiocVersion Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI dbplyr DelayedArray dir.expiry dplyr ExperimentHub fastmap filelock generics GenomicRanges glue h5mread HDF5Array httr httr2 IRanges jsonlite KEGGREST lattice lifecycle magrittr Matrix MatrixGenerics matrixStats memoise mime openssl pillar pkgconfig png purrr R6 rappdirs rhdf5 rhdf5filters Rhdf5lib rlang RSQLite S4Arrays S4Vectors Seqinfo SparseArray stringi stringr SummarizedExperiment sys tibble tidyr tidyselect utf8 vctrs withr XVector yaml

The orthosData package

Rendered fromorthosData.Rmdusingknitr::rmarkdown

Last update: 2023-05-17
Started: 2023-05-17

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
orthosData - Data for the orthos package	orthosData-package orthosData
Cache an orthosData contrast DB	GetorthosContrastDB
Cache orthosData models	GetorthosModels