Index of /public/dataset/HG002/Sequel-II-201910/HG002-HiFi-VariantDetection

Icon  Name                                    Last modified      Size  Description
[PARENTDIR] Parent Directory - [DIR] alignments/ 2019-10-01 23:28 - [DIR] hifireads/ 2019-10-01 15:13 - [DIR] variants/ 2019-10-01 23:29 - [TXT] MD5.txt 2019-10-02 00:09 680 [TXT] README.txt 2019-10-01 23:52 608
SAMPLE
    HG002 extracted DNA

METHODS
    Shearing         20 kb with Megaruptor
    Library prep     TPK 1.0
    Size selection   SageELF Fraction 4 (target: 15 kb)
    Sequencing       Sequel II System with 2.0 chemistry
    Run time         30 hrs per SMRT Cell
    Reference        hs37d5 (GRCh37 with decoy)
    CCS              "Circular Consensus Sequencing" analysis in SMRT Link v8.0 (ccs 4.0.0)
    SV Calling       "Structural Variant Calling" analysis in SMRT Link v8.0
    Variant Calling  DeepVariant 0.8.0
    Variant Phasing  WhatsHap 0.18

DOWNLOAD
    MD5 checksums are listed in MD5.txt