Package: hicVennDiagram 1.5.0

Jianhong Ou

hicVennDiagram: Venn Diagram for genomic interaction data

A package to generate high-resolution Venn and Upset plots for genomic interaction data from HiC, ChIA-PET, HiChIP, PLAC-Seq, Hi-TrAC, HiCAR and etc. The package generates plots specifically crafted to eliminate the deceptive visual representation caused by the counts method.

Authors:Jianhong Ou [aut, cre]

hicVennDiagram_1.5.0.tar.gz
hicVennDiagram_1.5.0.zip(r-4.5)hicVennDiagram_1.5.0.zip(r-4.4)hicVennDiagram_1.5.0.zip(r-4.3)
hicVennDiagram_1.5.0.tgz(r-4.4-any)hicVennDiagram_1.5.0.tgz(r-4.3-any)
hicVennDiagram_1.5.0.tar.gz(r-4.5-noble)hicVennDiagram_1.5.0.tar.gz(r-4.4-noble)
hicVennDiagram_1.5.0.tgz(r-4.4-emscripten)hicVennDiagram_1.5.0.tgz(r-4.3-emscripten)
hicVennDiagram.pdf |hicVennDiagram.html✨
hicVennDiagram/json (API)
NEWS

# Install 'hicVennDiagram' in R:

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

Bug tracker:https://github.com/jianhong/hicvenndiagram/issues

On BioConductor:hicVennDiagram-1.5.0(bioc 3.21)hicVennDiagram-1.4.0(bioc 3.20)

dna3dstructure hic visualization

4.48 score 5 scripts 114 downloads 10 exports 109 dependencies

Last updated 2 months agofrom:f6b6c77718. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 27 2024
R-4.5-win	OK	Nov 27 2024
R-4.5-linux	OK	Nov 27 2024
R-4.4-win	OK	Nov 27 2024
R-4.4-mac	OK	Nov 27 2024
R-4.3-win	OK	Nov 27 2024
R-4.3-mac	OK	Nov 27 2024

Exports:browseVenn browseVennOutput createGIbackground gleamTest renderbrowseVenn show upsetPlot vennCount vennPlot vennTable

Dependencies:abind askpass base64enc BH Biobase BiocGenerics BiocIO BiocParallel Biostrings bitops bslib cachem cli codetools colorspace ComplexUpset cpp11 crayon curl DelayedArray digest eulerr evaluate fansi farver fastmap fontawesome formatR fs futile.logger futile.options generics GenomeInfoDb GenomeInfoDbData GenomicAlignments GenomicRanges GenSA ggplot2 glue gtable highr htmltools htmlwidgets httr InteractionSet IRanges isoband jquerylib jsonlite knitr labeling lambda.r lattice lifecycle magrittr MASS Matrix MatrixGenerics matrixStats memoise mgcv mime munsell nlme openssl patchwork pillar pkgconfig plyr polyclip polylabelr R6 rappdirs RColorBrewer Rcpp RcppArmadillo RCurl reshape2 restfulr Rhtslib rjson rlang rmarkdown Rsamtools rtracklayer S4Arrays S4Vectors sass scales snow SparseArray stringi stringr SummarizedExperiment svglite sys systemfonts tibble tinytex UCSC.utils utf8 vctrs viridisLite withr xfun XML XVector yaml zlibbioc

hicVennDiagram Vignette: overview

Jianhong Ou

Rendered fromhicVennDiagram.Rmdusingknitr::rmarkdownon Nov 27 2024.

Last update: 2024-04-19
Started: 2023-07-05

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Browse the venn plot	browseVenn
Shiny bindings for browseVenn	browseVenn-shiny browseVennOutput renderbrowseVenn
Create background by input GInteractions	createGIbackground
Perform GLEAM test	gleamTest
UpSet plot for the Venn count table	upsetPlot
Construct intersections of sets	vennCount
Venn diagram for the Venn count table	vennPlot
Class '"vennTable"'	$,vennTable-method $<-,vennTable-method show,vennTable-method vennTable vennTable-class [[,vennTable,ANY,ANY-method [[<-,vennTable,ANY,ANY-method `[[<-`,vennTable-method `[[`,vennTable-method