README file for the path ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml
Last updated April 9, 2019


This directory contains XML for reference ClinVar accessions. As of April 4, 2019, there are two
types of XML, one for RCV accessions and one for VCV accessions.

Each file corresponds to a monthly comprehensive data release of either RCV or VCV accessions.

The RCV XML is provided in this directory (ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml).
The VCV XML is provided in the clinvar_variation subdirectory (ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml/clinvar_variation/).

Each file name is in the form of	
    ClinVarFullRelease_YYYY-MM.xml.gz for RCV XML
    or
    ClinVarVariationRelease_YYYY-MM.xml.gz for VCV XML
where YYYY, MM, and DD are the year, month and day the file was created.

Both types of XML file are updated the first Thurday of the month. A symbolic link  is established to the most recent file:
    ClinVarFullRelease_00-latest.xml.gz for RCV XML
    ClinVarVariationRelease_00-latest.xml.gz for VCV XML

The xsd's for validating the XML is provided in these paths:
ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xsd_public/  for RCV XML
ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xsd_public/clinvar_variation/ for VCV XML

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Subdirectories
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sample_xml
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The sample_xml subdirectory contains the following examples
 
A submission set:
ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml/sample_xml/sample_submission_set.xml

A example of a single ClinVarSet based on a previous instance of RCV000077146.2 which was based on SCV000108943.1 and SCV000145071.1:
ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml/sample_xml/RCV000077146.xml

Annotated examples of document summaries retrieved via the esummary utility:
http://test.ncbi.nlm.nih.gov/clinvar/docs/maintenance_use/#api

ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml/sample_xml/document_summary_simple_allele_9.xml
ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/xml/sample_xml/document_summary_haplotype_1904.xml

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archive
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This subdirectory contains xml from the monthly releases of previous years.
There are year-specific subdirectories.

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weekly_release
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A comprehesive extract of ClinVar's data as RCV XML generated each week as the 
web site is updated. All the content of the weekly_release subdirectory is removed when the monthly release XML is generated at the first of the month.

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clinvar_variation/weekly_release
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A comprehesive extract of ClinVar's data as VCV XML generated each week as the 
web site is updated. All the content of the weekly_release subdirectory is removed when the monthly release XML is generated at the first of the month.

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clinvar_variation/beta
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Versions of the VCV XML that were generated as part of a beta release. As of April 4, 2019, this directory is no longer updated.


Please direct any questions or comments to clinvar@ncbi.nlm.nih.gov