Package: MethylSeqData 1.23.0

Peter Hickey

MethylSeqData: Collection of Public DNA Methylation Sequencing Datasets

Base-level (i.e. cytosine-level) counts for a collection of public bisulfite-seq datasets (e.g., WGBS and RRBS), provided as SummarizedExperiment objects with sample- and base-level metadata.

Authors:Peter Hickey [aut, cre]

MethylSeqData_1.23.0.tar.gz
MethylSeqData_1.23.0.tar.gz(r-4.7-any)MethylSeqData_1.23.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
MethylSeqData/json (API)

# Install 'MethylSeqData' in R:

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

On BioConductor:MethylSeqData-1.23.0(data/experiment 3.24)MethylSeqData-1.22.0(data/experiment 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

experimenthub experimentdata sequencingdata homo_sapiens_data mus_musculus_data methylseqdata datapkg

3.30 score 2 scripts 3 exports 76 dependencies

Last updated from:3240f367f9. Checks:3 NOTE, 1 OK. 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	165
linux-devel	NOTE	347
source / vignettes	OK	231
linux-release	NOTE	372

Exports:ChenMammaryData listDatasets RizzardiHickeyBrain

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 GenomeInfoDb 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 UCSC.utils utf8 vctrs withr XVector yaml

Overview of the MethylSeqData dataset collection

Introduction | Available data sets | Adding new data sets | References

Rendered fromMethylSeqData.Rmdusingknitr::rmarkdown

Last update: 2020-11-25
Started: 2020-10-02

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Obtain the Chen mammary data	ChenMammaryData
List all available datasets	listDatasets
Obtain the Rizzardi/Hickey brain data	RizzardiHickeyBrain