HiSeq Control Software v 2.2.38

JGeskes · 11-11-2014, 05:26 AM

Hi there,

We recently installed the latest version of HCS on our HiSeqs. This was supposed to eliminate the need for control lanes and or phiX spike ins for low diversity samples. We ran a AT rich genome on the new software and had 69% PF. With the previous software this genome ran fine (95% PF). We also ran a SMARTer stranded pool that has low diversity in the first few cycles and the cluster density varies by as much as 200K clusters/mm2 between adjacent tiles. Has anyone else upgraded to the new software and had success or similar problems?
Thanks,
Jeanne

nucacidhunter · 11-11-2014, 11:44 AM

With this software upgrade 10% Phix spike in for low deversity libraries is recomended.

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11-11-2014, 05:26 AM	#1
JGeskes Junior Member Location: Michigan Join Date: Nov 2014 Posts: 1	HiSeq Control Software v 2.2.38 Hi there, We recently installed the latest version of HCS on our HiSeqs. This was supposed to eliminate the need for control lanes and or phiX spike ins for low diversity samples. We ran a AT rich genome on the new software and had 69% PF. With the previous software this genome ran fine (95% PF). We also ran a SMARTer stranded pool that has low diversity in the first few cycles and the cluster density varies by as much as 200K clusters/mm2 between adjacent tiles. Has anyone else upgraded to the new software and had success or similar problems? Thanks, Jeanne

11-11-2014, 11:44 AM	#2
nucacidhunter Jafar Jabbari Location: Melbourne Join Date: Jan 2013 Posts: 1,238	With this software upgrade 10% Phix spike in for low deversity libraries is recomended.