Illumina MiSeq data report
Wed Nov 22 13:00:02 EST 2017

This report details the progress in archiving sequencing data and processing gene therapy sequencing runs.

Sequencing runs that failed are highlighted in red while development runs are highlighted in yellow.
Runs annotated as gene therapy trials report the status of their integration site analyses.

Runs with missing sample data report admin comments when available.

Column details:
data archived (yes/no) sequencing data has been stored in both its primary and secondary archive locations.
The data sizes following this flag denote the data sizes in the data output directory, primary archive and secondary archive.
A dash for the output directory data size means that this data has been removed to conserve space.
Notable size differences between archives are noted in red.
run registered (yes/no) sequencing run event has been registered in the sequencing registry.
samples registered (yes/no) meta data for samples within a run have been registered in the sequencing registry.
intSites called (yes/no) integration site analyses have been performed (gene therapy runs only)
admin administrator notes for runs where the sample meta data has not been archived in the registry.



Status Run id data archived run registered samples registered intSites called links admin
production/successful170104_M03249_0218_000000000-ATRRGyes (-, 4.0 GB, 4.0 GB) yesyesyes stats   rarefaction  
production/successful170106_M03249_0219_000000000-AVG0Jyes (-, 4.0 GB, 4.0 GB) yesyesyes stats   rarefaction  
production/successful170112_M03249_0220_000000000-D2BE1yes (-, 0.3 GB, 0.3 GB) yesyesyes stats   rarefaction  
production/successful170113_M03249_0221_000000000-AYJP9yes (-, 1.4 GB, 1.4 GB) yesyes- -Guanxiang run - basic sample data in sampleSheet
production/successful170125_M03249_0222_000000000-AYJ1Nyes (-, 4.3 GB, 4.3 GB) yesyesyes stats   rarefaction  
production/successful170127_M03249_0223_000000000-AYGAAyes (-, 4.3 GB, 4.3 GB) yesyesyes stats   rarefaction  
production/successful170204_M03249_0224_000000000-AYJ23yes (-, 4.7 GB, 4.7 GB) yesyesyes stats   rarefaction  
development/failed170207_M03249_0225_000000000-G165Dyes (-, 0.3 GB, 0.3 GB) yesyesno -
development/successful170210_M03249_0226_000000000-G154Dyes (-, 0.5 GB, 0.5 GB) yesyesno -
production/successful170214_M03249_0227_000000000-AVCUJyes (-, 4.1 GB, 4.1 GB) yesyesyes stats   rarefaction  
production/successful170216_M03249_0228_000000000-AVFW2yes (-, 4.3 GB, 4.3 GB) yesyesyes stats   rarefaction  
production/failed170223_M03249_0229_000000000-AYCLKyes (-, 0.0 GB, 0.0 GB) yesno- -
production/successful170227_M03249_0230_000000000-B3DWVyes (-, 3.5 GB, 3.5 GB) yesyesyes stats   rarefaction  
production/successful170303_M03249_0231_000000000-B2YTYyes (-, 4.9 GB, 4.9 GB) yesyesyes stats   rarefaction  
production/successful170309_M03249_0232_000000000-G16R2yes (-, 0.9 GB, 0.9 GB) yesyesyes stats   rarefaction  
production/successful170310_M03249_0233_000000000-B2VR5yes (-, 4.7 GB, 4.7 GB) yesyesyes stats   rarefaction  
production/successful170313_M03249_0234_000000000-B3BVMyes (-, 5.7 GB, 5.7 GB) yesno- -Waiting on Aurea to provide the data
production/successful170317_M03249_0235_000000000-AV935yes (-, 0.7 GB, 0.7 GB) yesyes- -
production/successful170322_M03249_0236_000000000-B45RDyes (-, 2.8 GB, 2.8 GB) yesyesyes stats   rarefaction  
development/successful170324_M03249_0237_000000000-B3DY7yes (-, 2.1 GB, 2.1 GB) yesno- -GuideSeq dev
development/successful170327_M00281_0187_000000000-B23R9yes (-, 2.9 GB, 2.9 GB) yesno- -GuideSeq dev
development/failed170328_M03249_0238_000000000-AVG86yes (-, 0.0 GB, 0.0 GB) yesno- -
production/successful170331_M03249_0239_000000000-AVLJTyes (-, 3.6 GB, 3.6 GB) yesyesyes stats   rarefaction  
development/successful170404_M03249_0240_000000000-B4VWVyes (-, 2.9 GB, 2.9 GB) yesyesno stats   rarefaction  
production/failed170406_M03249_0241_000000000-B45RTyes (-, 0.1 GB, 0.1 GB) yesyesno -
development/successful170411_M03249_0242_000000000-G18EKyes (-, 0.6 GB, 0.6 GB) yesno- -GuideSeq dev
production/successful170412_M03249_0243_000000000-G17YCyes (-, 0.9 GB, 0.9 GB) yesyesyes stats   rarefaction  
production/successful170417_M03249_0244_000000000-B4RL8yes (-, 7.2 GB, 7.2 GB) yesyes- -Ize Imai provided data - need to reformat
production/successful170419_M03249_0245_000000000-AVLYHyes (-, 4.7 GB, 4.7 GB) yesyesyes stats   rarefaction  
production/successful170421_M03249_0246_000000000-AYHMEyes (-, 3.8 GB, 3.8 GB) yesyesyes stats   rarefaction  
production/successful170425_M03249_0247_000000000-B4V7Kyes (-, 3.5 GB, 3.5 GB) yesyesyes stats   rarefaction  
production/successful170501_M03249_0248_000000000-B628Fyes (-, 3.8 GB, 3.8 GB) yesyesyes stats   rarefaction  
production/successful170503_M03249_0249_000000000-B5MGNyes (-, 2.1 GB, 2.1 GB) yesyesyes stats   rarefaction  
production/successful170509_M03249_0250_000000000-B5P6Hyes (-, 4.1 GB, 4.1 GB) yesyesyes stats   rarefaction  
development/successful170522_M03249_0251_000000000-B8LLNyes (-, 2.5 GB, 2.5 GB) yesyes- -GuideSeq dev
production/successful170524_M03249_0252_000000000-B8W4Kyes (-, 3.0 GB, 3.0 GB) yesyesyes stats   rarefaction  
production/successful170526_M03249_0253_000000000-B5P6Byes (-, 4.4 GB, 4.4 GB) yesyesyes stats   rarefaction  
production/successful170529_M03249_0254_000000000-B8GFNyes (-, 1.6 GB, 1.6 GB) yesyesyes stats   rarefaction  
production/successful170605_M00281_0221_000000000-B9MRNyes (-, 3.6 GB, 3.5 GB) yesyes- -
production/successful170605_M03249_0255_000000000-B9MRLyes (-, 3.5 GB, 3.5 GB) yesyesyes stats   rarefaction  
production/failed170608_M03249_0256_000000000-B9N7Tyes (-, 0.0 GB, 0.0 GB) yesyesno -
production/failed170609_M03249_0257_000000000-B9N7Tyes (-, 0.0 GB, 0.0 GB) yesyesno -
development/successful170610_M03249_0258_000000000-B9N6Gyes (-, 9.3 GB, 9.3 GB) yesno- -Abby - MICU. Run was repeated (*BBJY9) due to sample issues but this data will be retained.
production/successful170612_M03249_0259_000000000-B9N7Pyes (-, 4.3 GB, 4.3 GB) yesyes- -Abby - flu; data in sampleSheet
production/successful170616_M03249_0260_000000000-BBBRMyes (-, 2.6 GB, 2.6 GB) yesyes- -Jake - MICU; data in sampleSheet
production/successful170619_M03249_0261_000000000-BBC67yes (-, 4.5 GB, 4.5 GB) yesyesyes stats   rarefaction   CYS patients
production/successful170621_M03249_0262_000000000-B9PRTyes (-, 4.5 GB, 4.5 GB) yesyes- -Aoife TTV; data in sampleSheet
development/successful170622_M00281_0231_000000000-B9PRYyes (-, 2.4 GB, 2.4 GB) yesyesno -Sillicano run
production/successful170626_M03249_0263_000000000-B9MT4yes (-, 3.6 GB, 3.6 GB) yesyesyes stats   rarefaction   Patients: p00001, p00008, p00005b, p00003
production/successful170629_M03249_0264_000000000-B8GHJyes (-, 5.5 GB, 5.5 GB) yesyesyes stats   rarefaction  
production/successful170703_M03249_0265_000000000-BBD66yes (4.9 GB, 4.9 GB, 4.9 GB) yesyes- -Jake - MICU, single mock barcode
production/successful170705_M03249_0266_000000000-B9MRJyes (5.5 GB, 5.5 GB, 5.5 GB) yesyesyes stats   rarefaction  
production/successful170707_M03249_0267_000000000-B9MTByes (2.4 GB, 2.4 GB, 2.4 GB) yesyes- -Jake - ITS / Aurea, single mock barcode
production/failed170718_M03249_0268_000000000-BB9TJyes (0.2 GB, 0.2 GB, 0.2 GB) yesno- -Jake - NSAID, single mock barcode
production/successful170721_M03249_0269_000000000-BCC6Fyes (4.9 GB, 4.9 GB, 4.9 GB) yesyes- -Jake - NSAID, single mock barcode (run 2)
production/successful170724_M03249_0270_000000000-BCD2Tyes (3.2 GB, 3.2 GB, 3.2 GB) yesyesyes stats   rarefaction  
production/successful170726_M03249_0271_000000000-G1B0Pyes (1.1 GB, 1.1 GB, 1.1 GB) yesyesyes stats   rarefaction  
production/failed170802_M03249_0273_000000000-BBD2Tyes (0.0 GB, 0.0 GB, 0.0 GB) yesno- -Shantan - failed June Guideseq
production/successful170803_M03249_0274_000000000-BBBPWyes (3.3 GB, 3.3 GB, 3.3 GB) yesyesyes stats   rarefaction  
development/successful170804_M03249_0275_000000000-BCC5Pyes (0.6 GB, 0.6 GB, 0.5 GB) yesno- -Shantan - June Guideseq
production/successful170808_M03249_0276_000000000-BBJY9yes (7.3 GB, 7.3 GB, 7.3 GB) yesyes- -Jake - MICU, single mock barcode
development/successful170812_M03249_0277_000000000-BBBV9yes (0.5 GB, 0.5 GB, 0.5 GB) yesno- -Shantan - GuideSeq; Clinical Sample Run Set2 both orientations new library
unknown/successful170814_M03249_0278_000000000-BBJHVyes (5.4 GB, 5.4 GB, 5.4 GB) yesyes- -(metadata missing) Jake - Mcginnis_16S_Run
external/successful170816_M03249_0279_000000000-G1CH8yes (1.5 GB, 1.5 GB, 1.5 GB) yesno- -Alexa - Fiona Blinded Panel
unknown/successful170818_M03249_0280_000000000-BC5DDyes (3.5 GB, 3.5 GB, 3.5 GB) yesyesyes stats   rarefaction   John G - SCIDn1 pP1, pP2, pP6
unknown/successful170821_M03249_0281_000000000-G1B14yes (1.1 GB, 1.1 GB, 1.1 GB) yesyesyes stats   rarefaction   John G - bThal; pPatient1, pPatient2, pPatient5
external/successful170822_M03249_0282_000000000-G1BV6yes (1.4 GB, 1.4 GB, 1.4 GB) yesno- -Fiona pl5 and 6
unknown/failed170823_M03249_0283_000000000-D2W1Vyes (0.1 GB, 0.1 GB, 0.1 GB) yesno- -partial
development/successful170825_M03249_0284_000000000-BCFV2yes (6.4 GB, 6.4 GB, 6.4 GB) yesno- -Shantan - GuideSeq; Non Clinical Run Set4 both strands
external/successful170828_M03249_0285_000000000-G1C4Ayes (1.7 GB, 1.7 GB, 1.7 GB) yesno- -Alexa - Gombe pl 3 and 4
unknown/failed170830_M03249_0286_000000000-G1D0Myes (0.1 GB, 0.1 GB, 0.0 GB) yesno- -
unknown/failed170901_M03249_0287_000000000-G1C3Gyes (0.1 GB, 0.1 GB, 0.1 GB) yesno- -
development/successful170906_M03249_0288_000000000-G1C7Ryes (0.2 GB, 0.2 GB, 0.2 GB) yesno- -Shantan - GuideSeq; Clinical Sample Run Set3 both orientations
development/successful170907_M03249_0289_000000000-BDHC9yes (1.6 GB, 1.6 GB, 1.6 GB) yesno- -Shantan - GuideSeq; Clinical Sample Run Set3 both orientations standard rerun
unknown/successful170911_M03249_0290_000000000-D2AWWyes (0.2 GB, 0.2 GB, 0.2 GB) yesyes- -Arwa; TTV healthy serum; metaData in sampleSheet
production/successful170913_M03249_0291_000000000-D2YPDyes (0.2 GB, 0.2 GB, 0.2 GB) yesyes- -Jake; Ize Stent ITS pool1; nano
production/successful170915_M03249_0292_000000000-D2Y90yes (0.4 GB, 0.4 GB, 0.4 GB) yesyes- -Jake; Ize Stent ITS pool2; nano
production/successful170918_M03249_0293_000000000-BC9VPyes (0.2 GB, 0.2 GB, 0.2 GB) yesyes- -LyannaKessler; LRK_JSL_Placenta_16S
production/successful170922_M03249_0294_000000000-G1DLGyes (0.7 GB, 0.7 GB, 0.7 GB) yesyesyes stats   rarefaction   SCIDn2; P1, P5; poor clustering
production/successful170925_M03249_0295_000000000-BCHT4yes (3.6 GB, 3.6 GB, 3.6 GB) yesyesyes stats   rarefaction   CYS; pCN552, pCNL59
production/successful170929_M03249_0296_000000000-G1DC0yes (1.4 GB, 1.4 GB, 1.4 GB) yesyesyes stats   rarefaction   WAS; pFR01, pFR03, pFR04
production/failed171004_M03249_0297_000000000-G1DK8yes (0.4 GB, 0.4 GB, 0.4 GB) yesyesno stats   rarefaction   SCIDn2; P1, P5; re-run; F read filled with Ns at one position
development/successful171005_M03249_0298_000000000-BC4BVyes (3.7 GB, 3.7 GB, 3.7 GB) yesnono -Silicano; CP07
external/successful171012_M03249_0299_000000000-BFWPLyes (6.1 GB, 6.1 GB, 6.1 GB) yesno- -Alexa; Gombe_dil
development/successful171018_M03249_0301_000000000-BDHCDyes (3.9 GB, 3.9 GB, 3.9 GB) yesnono -John G; Silicano; CP07 U5
development/successful171031_M03249_0302_000000000-BH493yes (3.8 GB, 3.8 GB, 3.8 GB) yesnono -John G; Silicano; CP08
production/successful171110_M03249_0303_000000000-BCH87yes (4.2 GB, 4.2 GB, 4.2 GB) nonono -