Get Coverage For Gene Panel - geneyx/geneyx.analysis.api GitHub Wiki

Get Coverage For Gene Panel

Geneyx now supports the ability to download the full coverage profile for a given sample that was processed from the secondary pipeline using a specified gene panel. A gene panel must first be created in the Gene Panel directory in the settings dialog. The files are accessible using the following API infrastructure and the output will be in JSON format.

URL:

https://analysis.geneyx.com/api/GetCoverageForGenePanel

Action:

POST

Payload:

JSON Structure

Requirements:

Category Parameter Description Required
Auth apiUserId The API user Id Yes
apiUserKey The API user key Yes
Sample sampleSn Same as the name given to the VCF file (SampleSerialNumber, sampleId) Yes
genePanelSn Gene Panel ID Yes

Request

{
  "apiUserId": "enter api user ID
  "apiUserKey": "enter api user key",
  "sampleSn": "DNA23645_S.dragen.wgs.grch37.20230920-125748",
  "genePanelSn": "CHD7"
}

Response

{ “Code”: “success”, “Data”: “{"Genes":{"CHD7":{"Chromosome":"chr8","Exons":[{"StartPosition":60741432,"EndPosition":60743097,"MeanCoverage":120.2,"MinCoverage":59,"MaxCoverage":206,"BasesBelow10":0,"ExonLen":1666,"ManeTrid":"NM_017780.4"},{"StartPosition":60780999,"EndPosition":60781430,"MeanCoverage":52.82,"MinCoverage":17,"MaxCoverage":112,"BasesBelow10":0,"ExonLen":432,"ManeTrid":"NM_017780.4"},{"StartPosition":60794985,"EndPosition":60795127,"MeanCoverage":78.89,"MinCoverage":61,"MaxCoverage":91,"BasesBelow10":0,"ExonLen":143,"ManeTrid":"NM_017780.4"},{"StartPosition":60800387,"EndPosition":60800525,"MeanCoverage":94.64,"MinCoverage":49,"MaxCoverage":114,"BasesBelow10":0,"ExonLen":139,"ManeTrid":"NM_017780.4"},{"StartPosition":60801527,"EndPosition":60801593,"MeanCoverage":85.48,"MinCoverage":73,"MaxCoverage":91,"BasesBelow10":0,"ExonLen":67,"ManeTrid":"NM_017780.4"},{"StartPosition":60808216,"EndPosition":60808272,"MeanCoverage":42.07,"MinCoverage":37,"MaxCoverage":48,"BasesBelow10":0,"ExonLen":57,"ManeTrid":"NM_017780.4"},{"StartPosition":60816386,"EndPosition":60816501,"MeanCoverage":61.59,"MinCoverage":49,"MaxCoverage":71,"BasesBelow10":0,"ExonLen":116,"ManeTrid":"NM_017780.4"},{"StartPosition":60820006,"EndPosition":60820090,"MeanCoverage":113.74,"MinCoverage":97,"MaxCoverage":125,"BasesBelow10":0,"ExonLen":85,"ManeTrid":"NM_017780.4"},{"StartPosition":60821789,"EndPosition":60821927,"MeanCoverage":136.68,"MinCoverage":100,"MaxCoverage":153,"BasesBelow10":0,"ExonLen":139,"ManeTrid":"NM_017780.4"},{"StartPosition":60822023,"EndPosition":60822145,"MeanCoverage":68.67,"MinCoverage":38,"MaxCoverage":92,"BasesBelow10":0,"ExonLen":123,"ManeTrid":"NM_017780.4"},{"StartPosition":60822502,"EndPosition":60822746,"MeanCoverage":103.33,"MinCoverage":54,"MaxCoverage":141,"BasesBelow10":0,"ExonLen":245,"ManeTrid":"NM_017780.4"},{"StartPosition":60823839,"EndPosition":60824016,"MeanCoverage":109.1,"MinCoverage":78,"MaxCoverage":131,"BasesBelow10":0,"ExonLen":178,"ManeTrid":"NM_017780.4"},{"StartPosition":60828662,"EndPosition":60828806,"MeanCoverage":98.88,"MinCoverage":75,"MaxCoverage":119,"BasesBelow10":0,"ExonLen":145,"ManeTrid":"NM_017780.4"},{"StartPosition":60830321,"EndPosition":60830577,"MeanCoverage":81.44,"MinCoverage":49,"MaxCoverage":105,"BasesBelow10":0,"ExonLen":257,"ManeTrid":"NM_017780.4"},{"StartPosition":60836072,"EndPosition":60836283,"MeanCoverage":104.25,"MinCoverage":49,"MaxCoverage":129,"BasesBelow10":0,"ExonLen":212,"ManeTrid":"NM_017780.4"},{"StartPosition":60836816,"EndPosition":60837012,"MeanCoverage":115.93,"MinCoverage":72,"MaxCoverage":143,"BasesBelow10":0,"ExonLen":197,"ManeTrid":"NM_017780.4"},{"StartPosition":60837667,"EndPosition":60837835,"MeanCoverage":84.15,"MinCoverage":42,"MaxCoverage":106,"BasesBelow10":0,"ExonLen":169,"ManeTrid":"NM_017780.4"},{"StartPosition":60838075,"EndPosition":60838255,"MeanCoverage":68.7,"MinCoverage":33,"MaxCoverage":92,"BasesBelow10":0,"ExonLen":181,"ManeTrid":"NM_017780.4"},{"StartPosition":60841643,"EndPosition":60841754,"MeanCoverage":131.91,"MinCoverage":103,"MaxCoverage":145,"BasesBelow10":0,"ExonLen":112,"ManeTrid":"NM_017780.4"},{"StartPosition":60841846,"EndPosition":60842052,"MeanCoverage":84.33,"MinCoverage":64,"MaxCoverage":105,"BasesBelow10":0,"ExonLen":207,"ManeTrid":"NM_017780.4"},{"StartPosition":60844863,"EndPosition":60845063,"MeanCoverage":131.75,"MinCoverage":107,"MaxCoverage":152,"BasesBelow10":0,"ExonLen":201,"ManeTrid":"NM_017780.4"},{"StartPosition":60845249,"EndPosition":60845409,"MeanCoverage":96.34,"MinCoverage":63,"MaxCoverage":111,"BasesBelow10":0,"ExonLen":161,"ManeTrid":"NM_017780.4"},{"StartPosition":60848514,"EndPosition":60848604,"MeanCoverage":134.92,"MinCoverage":90,"MaxCoverage":173,"BasesBelow10":0,"ExonLen":91,"ManeTrid":"NM_017780.4"},{"StartPosition":60849050,"EndPosition":60849154,"MeanCoverage":97.33,"MinCoverage":65,"MaxCoverage":112,"BasesBelow10":0,"ExonLen":105,"ManeTrid":"NM_017780.4"},{"StartPosition":60850492,"EndPosition":60850622,"MeanCoverage":97.52,"MinCoverage":69,"MaxCoverage":124,"BasesBelow10":0,"ExonLen":131,"ManeTrid":"NM_017780.4"},{"StartPosition":60851031,"EndPosition":60851104,"MeanCoverage":55.82,"MinCoverage":51,"MaxCoverage":63,"BasesBelow10":0,"ExonLen":74,"ManeTrid":"NM_017780.4"},{"StartPosition":60851261,"EndPosition":60851319,"MeanCoverage":48.22,"MinCoverage":38,"MaxCoverage":55,"BasesBelow10":0,"ExonLen":59,"ManeTrid":"NM_017780.4"},{"StartPosition":60852018,"EndPosition":60852247,"MeanCoverage":62.29,"MinCoverage":40,"MaxCoverage":79,"BasesBelow10":0,"ExonLen":230,"ManeTrid":"NM_017780.4"},{"StartPosition":60852497,"EndPosition":60852706,"MeanCoverage":74.72,"MinCoverage":45,"MaxCoverage":91,"BasesBelow10":0,"ExonLen":210,"ManeTrid":"NM_017780.4"},{"StartPosition":60852828,"EndPosition":60853500,"MeanCoverage":124.61,"MinCoverage":60,"MaxCoverage":196,"BasesBelow10":0,"ExonLen":673,"ManeTrid":"NM_017780.4"},{"StartPosition":60854362,"EndPosition":60854523,"MeanCoverage":74.46,"MinCoverage":58,"MaxCover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“Info”: null, “MoreInfo”: null, “NeedEval”: false }

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