67a404a4cd859fa5b44d69f0de454df659540d99 dschmelt Thu Aug 27 14:56:06 2020 -0700 Correcting tag for CR #26101 diff --git src/hg/htdocs/goldenPath/help/barChart.html src/hg/htdocs/goldenPath/help/barChart.html index c2cc579..732ddb0 100755 --- src/hg/htdocs/goldenPath/help/barChart.html +++ src/hg/htdocs/goldenPath/help/barChart.html @@ -25,45 +25,45 @@ The barChart format is available as a standalone plain text bed6+ format for use with smaller datasets as a custom track, and as a binary indexed format (bigBarChart) suitable for track hubs and custom tracks. The bigBarChart format provides more track customization features (i.e. schema customization, and label configuration support), and is recommended for users who can use command-line tools and have web-accessible data storage. If you do not have web-accessible data storage, please see the <a href="hgTrackHubHelp.html#Hosting"> Hosting</a> section of the Track Hub Help documentation. barChart format files are converted to bigBarChart files using the program <code>bedToBigBed</code>, run with the <code>-as</code> option to pull in a special <a href="http://www.linuxjournal.com/article/5949" target="_blank">autoSql</a> (<em>.as</em>) schema file defining the fields of the bigBarChart. </p> <p> Below is an example of the barChart format in 'full' visibility mode</p> -<p class='text-center'> - <img class='text-center' src="../../images/barChartFull.png" alt="BarChart example in full mode" width="883" height="143"> +<p class="text-center"> + <img class="text-center" src="../../images/barChartFull.png" alt="BarChart example in full mode" width="883" height="143"> </p> <p> The 'squish' display mode draws one colored rectangle indicating the category (e.g. tissue) with highest value of the measured metric (e.g. gene expression) if it contributes more than 10% to the total expression, otherwise the chart is colored black. The following image shows the GTEx Genes track in 'squish' mode; the beige colored item (tissue) has the highest expression in the ACE2 gene and represents more than 10% of total expression. Click into the colored rectange for more information.</p> -<p class='text-center'> +<p class="text-center"> <a href="../../cgi-bin/hgTracks?db=hg38&hideTracks=1&knownGene=pack>exGene=squish"> -<img class='text-center' src="../../images/barChartSquish.png" alt="BarChart example in squish mode" width="883" height="143"> +<img class="text-center" src="../../images/barChartSquish.png" alt="BarChart example in squish mode" width="883" height="143"> </a> </p> <a name=barChart></a> <h2>barChart format definition</h2> <p> The following autoSql definition illustrates the basic schema supporting barChart (and bigBarChart) tracks.</p> <pre><code>table bigBarChart "bigBarChart bar graph display" ( string chrom; "Reference sequence chromosome or scaffold" uint chromStart; "Start position in chromosome" uint chromEnd; "End position in chromosome"