2c23366274517a7468114784c0a924adcf4e7958 brianlee Mon May 9 14:43:46 2022 -0700 Adding a link to bedDetail blog in bigBed.html help page diff --git src/hg/htdocs/goldenPath/help/bigBed.html src/hg/htdocs/goldenPath/help/bigBed.html index e13afcc..256cf07 100755 --- src/hg/htdocs/goldenPath/help/bigBed.html +++ src/hg/htdocs/goldenPath/help/bigBed.html @@ -13,31 +13,34 @@ files are in an indexed binary format. The main advantage of the bigBed files is that only those portions of the files needed to display a particular region are transferred to the Genome Browser server. Because of this, bigBed has considerably faster display performance than regular BED when working with large data sets. The bigBed file remains on your local web-accessible server (http, https, or ftp), not on the UCSC server, and only the portion that is needed for the currently displayed chromosomal position is locally cached as a "sparse file". If you do not have access to a web-accessible server and need hosting space for your bigBed files, please see the <a href="hgTrackHubHelp.html#Hosting">Hosting</a> section of the Track Hub Help documentation.</p> <p> Additional indices can be created for the items in a bigBed file to support item search in track hubs. See <a href="#Ex3">Example #3</a> below for an example of how to build an additional index.</p> <p> See <a href="http://genomewiki.ucsc.edu/index.php/Selecting_a_graphing_track_data_format" target="_blank">this wiki page</a> for help in selecting the graphing track data format that is most -appropriate for your type of data.</p> +appropriate for your type of data. To see an example of turning a text-based bedDetail custom track +into the <code>bigBed</code> format, see this +<a href="https://genome-blog.soe.ucsc.edu/blog/2021/08/03/how-make-a-bigbed-file-part-1/" +target="_blank">How to make a bigBed file</a> blog post.</p> <p> Note that the <code>bedToBigBed</code> utility uses a substantial amount of memory: approximately 25% more RAM than the uncompressed BED input file.</p> <p> <a name=quick></a> <h2>Quickstart example commands</h2> It is not hard to create a bigBed file. The following UNIX commands create one on a Linux machine (swap macOSX for linux for an Apple environment). The steps are explained in more detail in the following sections on this page: <pre><code>wget https://genome.ucsc.edu/goldenPath/help/examples/bedExample.txt wget https://genome.ucsc.edu/goldenPath/help/hg19.chrom.sizes wget http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bedToBigBed