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RD-Connect / vcfLoader

From gVCFS to ElasticSearch through SparkSQL-Hive-Parquet
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dbsnip version #40

Open dpiscia opened 8 years ago

dpiscia commented 8 years ago

sometime a variant can have two dbsnip annotation

1 159527368 RS=rs11303459;dbSNPBuildID=120;SAO=0;RS=rs200142556;dbSNPBuildID=137;SAO=0 CT C, 148.75 mrd10;mrd15 DP=9;MLEAC=2,0;MLEAF=1.00,0.00;MQ=60.00;MQ0=0;EFF=INTRON(MODIFIER|||||RP11-740C1.2|unprocessed_pseudogene|NON_CODING|ENST00000435442|1|1),INTRON(MODIFIER|||||RP11-740C1.2|unprocessed_pseudogene|NON_CODING|ENST00000435442|1|2) GT:AD:DP:GQ:PL:SB 1/1:0,8,0:8:24:186,24,0,186,24,186:0,0,2,6​

the loader should be consistent