{"id":3204,"date":"2022-01-14T06:57:36","date_gmt":"2022-01-14T01:27:36","guid":{"rendered":"https:\/\/cbirt.net\/staging\/?p=3204"},"modified":"2022-06-18T13:38:53","modified_gmt":"2022-06-18T08:08:53","slug":"multi-omics-data-visualization-and-chromosomes-annotation-with-an-r-package-chromomap","status":"publish","type":"post","link":"https:\/\/cbirt.net\/staging\/multi-omics-data-visualization-and-chromosomes-annotation-with-an-r-package-chromomap\/","title":{"rendered":"Multi-omics Data Visualization and Chromosomes Annotation with an R Package \u201cChromoMap\u201d"},"content":{"rendered":"\n<p class=\"wp-block-paragraph\">ChromoMap is a fast and easy-to-use tool for visualizing genomic elements and related data (such as multi-omics data) in relation to their chromosome-by-chromosome occurrence for any genome assembly.&nbsp;<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">ChromoMap provides customizable displays that allow for the comparison of data individually connected with each strand of a specific chromosome, as well as homologous chromosomes of any size. Individual viewing of multi-omics data in all homologous chromosomes of phased diploid\/polyploid genomes is also possible with ChromoMap.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<div class=\"wp-block-image\"><figure class=\"aligncenter is-resized\"><img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/lh6.googleusercontent.com\/3HJIhg4ejNdg0xc2dmYFZhQIpHKu6Yht5tKIQeYccn7XPzFj0rDKwl6EWlgowvEKz7O8r4ei2mBEpyUVjhS4mJHWbKm0sfWx9dTPEVfe9Nk4re3wGaEtlg0u8dvzehVtn7aI9Hkl\" alt=\"\" width=\"535\" height=\"469\"\/><figcaption><meta charset=\"utf-8\"><meta charset=\"utf-8\">Example plot generated using chromLinks: Normalized expression of the top 50 highly expressed orthologous genes in mouse (<em>Mus musculus<\/em>) and rat (<em>Rattus norvegicus<\/em>) during pluripotent cell determination (NCBI Gene Expression Omnibus id: GSE42081) [<a href=\"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-021-04556-z#ref-CR16\">16<\/a>]. Orthologous gene pairs are connected with colored links. Each orthologous pair is indicated by a different link color.\u00a0<br>Image Source: <a href=\"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-021-04556-z\">ChromoMap: an R package for interactive visualization of multi-omics data and annotation of chromosomes<\/a><\/figcaption><\/figure><\/div>\n\n\n\n<p class=\"wp-block-paragraph\">chromoMap is built by using two languages, R and JavaScript. The features of chromoMap include visualizing options for point and segment annotations, group annotations, labeling, and hyperlinking genomic features.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">The package ChromoMap\u00a0 and its documentation are available under the GPL-3 Open Source license from: \u00a0<a href=\"https:\/\/cran.r-project.org\/package=chromoMap\">https:\/\/CRAN.R-project.org\/package=chromoMap<\/a><\/p>\n\n\n\n<p class=\"wp-block-paragraph\">Story Source:  <meta charset=\"utf-8\">Anand, L., Rodriguez Lopez, C.M. ChromoMap: an R package for interactive visualization of multi-omics data and annotation of chromosomes.\u00a0<em>BMC Bioinformatics<\/em>\u00a0<strong>23,\u00a0<\/strong>33 (2022). https:\/\/doi.org\/10.1186\/s12859-021-04556-z <\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n","protected":false},"excerpt":{"rendered":"<p>ChromoMap is a fast and easy-to-use tool for visualizing genomic elements and related data (such as multi-omics data) in relation to their chromosome-by-chromosome occurrence for any genome assembly.&nbsp; ChromoMap provides customizable displays that allow for the comparison of data individually connected with each strand of a specific chromosome, as well as homologous chromosomes of any&#8230;<\/p>\n","protected":false},"author":3,"featured_media":3206,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_kad_post_transparent":"","_kad_post_title":"","_kad_post_layout":"","_kad_post_sidebar_id":"","_kad_post_content_style":"","_kad_post_vertical_padding":"","_kad_post_feature":"","_kad_post_feature_position":"","_kad_post_header":false,"_kad_post_footer":false,"_kad_post_classname":"","footnotes":""},"categories":[154,169,140,173,188],"tags":[189],"class_list":["post-3204","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-bioinformatics","category-genomics","category-bioinformatics-news","category-omics","category-tools","tag-multi-omics"],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v28.7 (Yoast SEO v28.7) - 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She is a passionate bioinformatics scientist and a visionary entrepreneur. Dr. Tamanna has worked as a Young Scientist at Jawaharlal Nehru University, New Delhi. She has also worked as a Postdoctoral Fellow at the University of Saskatchewan, Canada. She has several scientific research publications in high-impact research journals. Her latest endeavor is the development of a platform that acts as a one-stop solution for all bioinformatics related information as well as developing a bioinformatics news portal to report cutting-edge bioinformatics breakthroughs.","sameAs":["https:\/\/cbirt.net\/staging"],"honorificPrefix":"Dr."}]}},"post_mailing_queue_ids":[],"_links":{"self":[{"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/posts\/3204","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/comments?post=3204"}],"version-history":[{"count":0,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/posts\/3204\/revisions"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/media\/3206"}],"wp:attachment":[{"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/media?parent=3204"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/categories?post=3204"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/cbirt.net\/staging\/wp-json\/wp\/v2\/tags?post=3204"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}