Package: marinerData 1.13.1

Eric Davis

marinerData: ExperimentHub data for the mariner package

Subsampled Hi-C in HEK cells expressing the NHA9 fusion with an F to S mutated IDR ("FS") or without any mutations to the IDR ("Wildtype" or "WT"). These files are used for testing mariner functions and some examples.

Authors:Eric Davis [aut, cre]

marinerData_1.13.1.tar.gz
marinerData_1.13.1.tar.gz(r-4.7-any)marinerData_1.13.1.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
marinerData/json (API)

# Install 'marinerData' in R:

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

On BioConductor:marinerData-1.13.1(data/experiment 3.24)marinerData-1.12.0(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 datapkg

3.32 score 21 scripts 16 exports 57 dependencies

Last updated from:706b79815f. Checks:1 NOTE, 3 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	164
linux-devel	OK	708
source / vignettes	OK	605
linux-release	OK	2080

Exports:FS_5kbLoops.txt LEUK_HEK_PJA27_inter_30_2500Kb.cool LEUK_HEK_PJA27_inter_30.hic LEUK_HEK_PJA27_inter_30.mcool LEUK_HEK_PJA30_inter_30_2500Kb.cool LEUK_HEK_PJA30_inter_30.hic LEUK_HEK_PJA30_inter_30.mcool LIMA_0000.bedpe LIMA_0030.bedpe LIMA_0060.bedpe LIMA_0090.bedpe LIMA_0120.bedpe LIMA_0240.bedpe LIMA_0360.bedpe LIMA_1440.bedpe WT_5kbLoops.txt

Dependencies:AnnotationDbi AnnotationHub askpass Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocManager BiocVersion Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI dbplyr dplyr ExperimentHub fastmap filelock generics glue httr httr2 IRanges jsonlite KEGGREST lifecycle magrittr memoise mime openssl pillar pkgconfig png purrr R6 rappdirs rlang RSQLite S4Vectors Seqinfo stringi stringr sys tibble tidyr tidyselect utf8 vctrs withr XVector yaml

marinerData package

Session information

Rendered frommarinerData.Rmdusingknitr::rmarkdown

Last update: 2023-04-11
Started: 2023-03-30

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Example NHA9 (FS) Loops	FS_5kbLoops.txt
Example NHA9 (FS) Hi-C data in .cool format	LEUK_HEK_PJA27_inter_30_2500Kb.cool
Example NHA9 (FS) Hi-C data	LEUK_HEK_PJA27_inter_30.hic
Example NHA9 (FS) Hi-C data in .mcool format	LEUK_HEK_PJA27_inter_30.mcool
Example NHA9 (WT) Hi-C data in .cool format	LEUK_HEK_PJA30_inter_30_2500Kb.cool
Example NHA9 (WT) Hi-C data	LEUK_HEK_PJA30_inter_30.hic
Example NHA9 (WT) Hi-C data in .mcool format	LEUK_HEK_PJA30_inter_30.mcool
Example Timecourse Loops	LIMA_0000.bedpe
Example Timecourse Loops	LIMA_0030.bedpe
Example Timecourse Loops	LIMA_0060.bedpe
Example Timecourse Loops	LIMA_0090.bedpe
Example Timecourse Loops	LIMA_0120.bedpe
Example Timecourse Loops	LIMA_0240.bedpe
Example Timecourse Loops	LIMA_0360.bedpe
Example Timecourse Loops	LIMA_1440.bedpe
ExperimentHub datasets for the mariner package	marinerData
Example NHA9 (WT) Loops	WT_5kbLoops.txt