6a2563095fd31472040d16eae2b2527945767f07 lrnassar Thu May 16 16:46:08 2019 -0700 Some missing anchor closings found by htmlCheck strictTagNestCheck diff --git src/hg/htdocs/goldenPath/help/api.html src/hg/htdocs/goldenPath/help/api.html index bfa2a48..188cc5c 100755 --- src/hg/htdocs/goldenPath/help/api.html +++ src/hg/htdocs/goldenPath/help/api.html @@ -41,33 +41,33 @@ </pre> </p> <!-- ========== What type of data can be accessed ? ===================== --> <a id="Return"></a> <h2>What type of data can be accessed ?</h2> <p> The following data sets can be accessed at this time: <ul> <li>List of available public hubs</li> <li>List of available UCSC Genome Browser genome assemblies</li> <li>List genomes from a specified assembly or track hub</li> <li>List available data tracks from a specified hub or UCSC Genome Browser genome assembly (see also: <a href='trackDb/trackDbHub.html' target=_blank>track definition help</a>)</li> -<li>List of chromosomes contained in an assembly hub or UCSC Genome Browser genome assembly +<li>List of chromosomes contained in an assembly hub or UCSC Genome Browser genome assembly</li> <li>List of chromosomes contained in a specific track of an assembly or track hub, or UCSC Genome -Browser genome assembly +Browser genome assembly</li> <li>Return DNA sequence from an assembly hub 2bit file, or UCSC Genome Browser assembly</li> <li>Return track data from a specified assembly or track hub, or UCSC Genome Browser assembly</li> </ul> </p> <!-- ========== Endpoint functions ======================= --> <a id="Endpoint"></a> <h2>Endpoint functions to return data</h2> <p> The url <b>https://api.genome.ucsc.edu/</b> is used to access the endpoint functions. For example: <pre> curl -L 'https://api.genome.ucsc.edu/list/ucscGenomes' </pre> </p> @@ -96,31 +96,31 @@ assembly</li> <li>chrom=<chrN> - specify chromosome name for sequence or track data</li> <li>start=<123> - specify start coordinate (0 relative) for data from track or sequence retrieval (start and end required together). See also: <a href='http://genome.ucsc.edu/blog/the-ucsc-genome-browser-coordinate-counting-systems/' target=_blank>UCSC browser coordinate counting systems</a></li> <li>end=<456> - specify end coordinate (1 relative) for data from track or sequence retrieval (start and end required together). See also: <a href='http://genome.ucsc.edu/blog/the-ucsc-genome-browser-coordinate-counting-systems/' target=_blank>UCSC browser coordinate counting systems</a></li> <li>maxItemsOutput=1000 - limit number of items to output, default: 1,000, maximum limit: 1,000,000 (use <em>-1</em> to get maximum output)</li> <li>trackLeavesOnly=1 - on <em>/list/tracks</em> function, only show tracks, do not show composite container information</li> <li>jsonOutputArrays=1 - on <em>/getData/track</em> function, JSON format is array type -for each item of data, instead of the default object type +for each item of data, instead of the default object type</li> </ul> </p> <p> The parameters are added to the endpoint URL beginning with a question mark <b>?</b>, and multiple parameters are separated with the semi-colon <b>;</b>. For example: <pre> https://api.genome.ucsc.edu/getData/sequence?genome=hg38;chrom=chrM </pre> </p> <!-- ========== Required and optional parameters ======================= --> <a id="Parameter_use"></a> <h2>Required and optional parameters</h2> <p>