Package: RIdeogram 0.2.2

RIdeogram: Drawing SVG Graphics to Visualize and Map Genome-Wide Data on Idiograms

For whole-genome analysis, idiograms are virtually the most intuitive and effective way to map and visualize the genome-wide information. RIdeogram was developed to visualize and map whole-genome data on idiograms with no restriction of species.

Authors:Zhaodong Hao [aut, cre], Dekang Lv [aut], Ying Ge [aut], Jisen Shi [aut], Weijers Dolf [aut], Guangchuang Yu [aut], Jinhui Chen [aut]

RIdeogram_0.2.2.tar.gz
RIdeogram_0.2.2.zip(r-4.7)RIdeogram_0.2.2.zip(r-4.6)RIdeogram_0.2.2.zip(r-4.5)
RIdeogram_0.2.2.tgz(r-4.6-any)RIdeogram_0.2.2.tgz(r-4.5-any)
RIdeogram_0.2.2.tar.gz(r-4.7-any)RIdeogram_0.2.2.tar.gz(r-4.6-any)
RIdeogram_0.2.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
RIdeogram/json (API)

# Install 'RIdeogram' in R:

install.packages('RIdeogram', repos = c('https://tickingclock1992.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tickingclock1992/rideogram/issues

Datasets:

Fst_between_CE_and_CW - Fst between two Liriodendron groups
gene_density - Gene distribution across the human genome
human_karyotype - Karyotype information of the human genome
karyotype_dual_comparison - Karyotype for two genome comparison
karyotype_ternary_comparison - Karyotype for three genome comparison
liriodendron_karyotype - Karyotype information of the Liriodendron genome
LTR_density - LTR distribution across the human genome
Pi_for_CE - Pi of one Liriodendron group
Pi_for_CE_and_CW - Pi of two Liriodendron groups
Random_RNAs_500 - 500 RNAs' position
synteny_dual_comparison - Synteny for two genome comparison
synteny_ternary_comparison - Synteny for three genome comparison
synteny_ternary_comparison_graident - Synteny for three genome comparison with gradient fill

On CRAN:

8.36 score 198 stars 129 scripts 684 downloads 9 mentions 7 exports 35 dependencies

Last updated from:aaaa2b303c. Checks:7 WARNING, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	WARNING	154
source / vignettes	OK	192
linux-release-x86_64	WARNING	147
macos-release-arm64	WARNING	131
macos-oldrel-arm64	WARNING	139
windows-devel	WARNING	109
windows-release	WARNING	115
windows-oldrel	WARNING	120
wasm-release	OK	124

Exports:convertSVG GFFex ideogram svg2jpg svg2pdf svg2png svg2tiff

Dependencies:base64enc cli cpp11 dplyr farver generics ggplot2 glue grImport2 gtable isoband jpeg labeling lifecycle magrittr pillar pkgconfig png purrr R6 RColorBrewer rlang rsvg S7 scales stringi stringr tibble tidyr tidyselect utf8 vctrs viridisLite withr XML

RIdeogram: drawing SVG graphics to visualize and map genome-wide data on idiograms

Introduction | Citation | Usage and Examples

Rendered fromRIdeogram.Rmdusingknitr::rmarkdown

Last update: 2020-01-20
Started: 2018-12-27

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
convertSVG	convertSVG svg2jpg svg2pdf svg2png svg2tiff
Fst between two Liriodendron groups	Fst_between_CE_and_CW
Gene distribution across the human genome	gene_density
GFFex	GFFex
Karyotype information of the human genome	human_karyotype
ideogram	ideogram
Karyotype for two genome comparison	karyotype_dual_comparison
Karyotype for three genome comparison	karyotype_ternary_comparison
Karyotype information of the Liriodendron genome	liriodendron_karyotype
LTR distribution across the human genome	LTR_density
Pi of one Liriodendron group	Pi_for_CE
Pi of two Liriodendron groups	Pi_for_CE_and_CW
500 RNAs' position	Random_RNAs_500
Synteny for two genome comparison	synteny_dual_comparison
Synteny for three genome comparison	synteny_ternary_comparison
Synteny for three genome comparison with gradient fill	synteny_ternary_comparison_graident