{"id":1658,"date":"2008-07-25T15:21:12","date_gmt":"2008-07-25T13:21:12","guid":{"rendered":"http:\/\/www.wjst.de\/blog\/?page_id=1658"},"modified":"2009-06-19T07:59:15","modified_gmt":"2009-06-19T05:59:15","slug":"genome-plots-with-sigmaplot","status":"publish","type":"post","link":"https:\/\/www.wjst.de\/blog\/sciencesurf\/2008\/07\/genome-plots-with-sigmaplot\/","title":{"rendered":"Genome plots with Sigmaplot"},"content":{"rendered":"<p>Here are some instructions how to create genome coordinate plots with Sigmaplot. The <a href=\"http:\/\/www.systat.com\/products\/SigmaPlot\/resources\/?sec=1016\">Systat Sigmaplot FAQ<\/a> recommends for this kind of figures &#8220;floating bars&#8221; that<\/p>\n<blockquote><p>\ncan be created using two different mechanisms. If you just need a simple floating bar chart, you can use a box plot of two values per column. Enter the top and bottom ranges for your bars in each column, and then create a box plot&#8230;<br \/>\nIf you need to create grouped, floating bar charts, you will need &#8230; a masking plot. Create a grouped bar chart, using the upper values of the bars. Create a second bar chart for the same graph (click the graph, then click the grouped bar chart icon from the Graph toolbar), this time, using the lower values of the bars.\n<\/p><\/blockquote>\n<p>None of these methods works with fill patterns. Also repeated segments (at the same level) are not possible. <\/p>\n<p>So I have worked out therefore another method using a <strong>stacked bar<\/strong> plot:<br \/>\n(1) put in the first column an increasing value 1 &#8230; 10 (->gets Y axis)<br \/>\n(2) put into the second column zeros (->gets start set 1)<br \/>\n(3) third colum: first feature start (->gets end set 1)<br \/>\n(4) fourth column: zeros  (->gets start set 2)<br \/>\n(5) fifth column: first feature end  (->gets end set 2)<br \/>\n(6) and so on<br \/>\n(7) assign colors: white for start set 1, blue for start set 2, white for start set 3 and so on<\/p>\n<p>You should then end up with a plot like this<\/p>\n<p><a href=\"https:\/\/www.wjst.de\/blog\/wp-content\/uploads\/2008\/07\/genomesigma.png\" data-rel=\"key-image-0\" data-rl_title=\"\" data-rl_caption=\"\"><img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/www.wjst.de\/blog\/wp-content\/uploads\/2008\/07\/genomesigma.png\" alt=\"\" title=\"\" width=\"480\" height=\"302\" class=\"alignnone size-full wp-image-1657\" \/><\/a><\/p>\n\n<p>&nbsp;<\/p>\n<div class=\"bottom-note\">\n  <span class=\"mod1\">CC-BY-NC Science Surf , accessed 24.04.2026<\/span>\n <\/div>","protected":false},"excerpt":{"rendered":"<p>Here are some instructions how to create genome coordinate plots with Sigmaplot. The Systat Sigmaplot FAQ recommends for this kind of figures &#8220;floating bars&#8221; that can be created using two different mechanisms. If you just need a simple floating bar chart, you can use a box plot of two values per column. Enter the top &hellip; <a href=\"https:\/\/www.wjst.de\/blog\/sciencesurf\/2008\/07\/genome-plots-with-sigmaplot\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">Genome plots with Sigmaplot<\/span> <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[8],"tags":[],"class_list":["post-1658","post","type-post","status-publish","format-standard","hentry","category-asthma-allergy"],"_links":{"self":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1658","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/comments?post=1658"}],"version-history":[{"count":1,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1658\/revisions"}],"predecessor-version":[{"id":2530,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/posts\/1658\/revisions\/2530"}],"wp:attachment":[{"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/media?parent=1658"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/categories?post=1658"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.wjst.de\/blog\/wp-json\/wp\/v2\/tags?post=1658"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}