| ... | @@ -23,30 +23,29 @@ Assertion API endpoint for computing variant pathogenicity given a set of eviden |
... | @@ -23,30 +23,29 @@ Assertion API endpoint for computing variant pathogenicity given a set of eviden |
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> }
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> }
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> }
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> }
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> ```
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> ```
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> Example of how the route works:
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A.4) Example of how the route works:
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> ```plaintext
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> const SimpleJsonReq = require( "@brl/brl-gb/client/simple/simpleJsonReq" ).SimpleJsonReq
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```plaintext
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> let baseUrl = "https://cspec.genome.network/cspec/eng/svi"
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const SimpleJsonReq = require( "@brl/brl-gb/client/simple/simpleJsonReq" ).SimpleJsonReq
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> let clientOpts = { timeout: 600000 }
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let baseUrl = "https://cspec.genome.network/cspec/eng/svi"
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> let jsClient = undefined
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let clientOpts = { timeout: 600000 }
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> let resp = undefined
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let jsClient = undefined
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> jsClient = new SimpleJsonReq( baseUrl, clientOpts )
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let resp = undefined
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> let reqConfig = {
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jsClient = new SimpleJsonReq( baseUrl, clientOpts )
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> serverCertCheck : false,
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let reqConfig = {
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> data: payload
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serverCertCheck : false,
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> }
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data: payload
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> resp = await jsClient.doGet('/assertion', reqConfig)
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}
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global.brl.dot.pick('data', resp.data)
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resp = await jsClient.doGet('/assertion', reqConfig)
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> { comment:
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> global.brl.dot.pick('data', resp.data)
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> 'Two assertions: Pathogenic and Likely Pathogenic were made. In such case the final call is the highest strength call, hence the allele is Pathogenic',
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{ comment:
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> finalCall: 'Pathogenic',
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'Two assertions: Pathogenic and Likely Pathogenic were made. In such case the final call is the highest strength call, hence the allele is Pathogenic',
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> rules:
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finalCall: 'Pathogenic',
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> [ { conditions: [Array], inference: 'Pathogenic', rule: 'Rule1' },
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rules:
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> { conditions: [Array], inference: 'Pathogenic', rule: 'Rule2' },
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[ { conditions: [Array], inference: 'Pathogenic', rule: 'Rule1' },
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> { conditions: [Array],
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{ conditions: [Array], inference: 'Pathogenic', rule: 'Rule2' },
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> inference: 'Likely Pathogenic',
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{ conditions: [Array],
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> rule: 'Rule20' } ],
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inference: 'Likely Pathogenic',
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> statusObj: { name: 'assertion computed', status: 'ok' } }
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rule: 'Rule20' } ],
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> ``` |
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statusObj: { name: 'assertion computed', status: 'ok' } }
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\ No newline at end of file |
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``` |
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\ No newline at end of file |
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