44943adffb5893ab0843285b1992928de03fa4b8 max Thu Nov 20 22:05:10 2025 -0800 changing the clinvar docs to reflect new update frequency, no redmine diff --git src/hg/makeDb/trackDb/human/clinvar.html src/hg/makeDb/trackDb/human/clinvar.html index c6162c3bafe..2aeb84fa183 100644 --- src/hg/makeDb/trackDb/human/clinvar.html +++ src/hg/makeDb/trackDb/human/clinvar.html @@ -125,39 +125,40 @@ </p> <p> For the human genome version hg19, the hg19 genome released by UCSC in 2009 had a mitochondrial genome "chrM" that was not the same as the one later used for most databases like ClinVar. As a result, we added the official mitochondrial genome in 2020 as "chrMT", and all mitochondrial annotations of ClinVar and most other databases are shown on the mitochondrial genome called "chrMT". For a full description of the issue of the mitochondrial genome in hg19, please see the <a target=_blank href="https://hgdownload.soe.ucsc.edu/goldenPath/hg19/bigZips/">hg19 README file</a> on our download site. </p> <h2>Data updates</h2> -<p>ClinVar publishes a new release on the +<p>ClinVar tries to publish a new release on the <a target="_blank" href="https://www.ncbi.nlm.nih.gov/feed/rss.cgi?ChanKey=ClinVarNews">first Thursday of every month</a>. -This track is then updated automatically at most six days -later. The exact date of our last update is shown on the track configuration page. +In practice, the exact day can move by a few days. +Our track updated on the day after any ClinVar release, and copied to our public site one day later. +The exact date of our last update is shown on the track configuration page. You can find the previous versions of the track organized by month on our downloads server in the <a href="http://hgdownload.soe.ucsc.edu/goldenPath/archive/$db/clinvar/" target="_blank">archive</a> -directory. To display one of these previous versions, paste the URL to one of +directory. To display a previous version of the track, paste the URL to one of the older files into the custom track text input field under "My Data > Custom Tracks".</p> <H2>Data access</H2> <p> The raw data can be explored interactively with the <a href="../cgi-bin/hgTables">Table Browser</a> or the <a href="../cgi-bin/hgIntegrator">Data Integrator</a>. The data can be accessed from scripts through our <a href="https://api.genome.ucsc.edu">API</a>, the track names are "clinVarMain and "clinVarCnv". <p> For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from <a href="http://hgdownload.soe.ucsc.edu/gbdb/$db/bbi/clinvar" target="_blank">our download server</a>. The files for this track are called <tt>clinvarMain.bb</tt> and <tt>clinvarCnv.bb</tt>. Individual regions or the whole genome annotation can be obtained using our tool <tt>bigBedToBed</tt>,